Building pycogent-1.5.3_2.txz (origin /buildshare/ports/355755/biology/pycogent) for powerpc-10-0 on XXX slot2: created x distfiles/ x distfiles/PyCogent-1.5.3.tgz x packages/ x packages/perl5-5.16.3_10.txz x packages/mpfr-3.1.2_2.txz x packages/py27-MarkupSafe-0.23.txz x packages/py27-setuptools27-2.0.1.txz x packages/py27-sqlalchemy06-0.6.9.txz x packages/libxml2-2.9.1_1.txz x packages/py27-Jinja2-2.7.2_1.txz x packages/mysql55-client-5.5.37.txz x packages/cython-0.20.1.txz x packages/py27-numpy-1.8.0_2,1.txz x packages/lapack-3.4.2_2.txz x packages/mpc-1.0.2.txz x packages/gettext-0.18.3.1_1.txz x packages/gmp-5.1.3_2.txz x packages/suitesparse-4.0.2_3.txz x packages/python2-2_2.txz x packages/postgresql92-client-9.2.8_1.txz x packages/py27-pytz-2014.3,1.txz x packages/py27-nose-1.3.0_1.txz x packages/blas-3.4.2_2.txz x packages/py27-sqlite3-2.7.6_3.txz x packages/gcc-4.7.3_1.txz x packages/py27-sphinx-1.2.2.txz x packages/gmake-3.82_1.txz x packages/pkgconf-0.9.5.txz x packages/cmake-modules-2.8.12.1_1.txz x packages/m4-1.4.17_1,1.txz x packages/bison-2.7.1,1.txz x packages/sqlite3-3.8.4.3.txz x packages/py27-pygments-1.6_2.txz x packages/py27-docutils-0.11.txz x packages/pkg-1.2.7_2.txz x packages/py27-MySQLdb-1.2.3_4.txz x packages/binutils-2.24.txz x packages/python27-2.7.6_4.txz x packages/py27-Babel-1.3_1.txz x packages/cmake-2.8.12.1_4.txz x packages/py27-psycopg2-2.5.3.txz ELF ldconfig path: /lib /usr/lib /usr/lib/compat Make depends ===> pycogent-1.5.3_2 depends on file: /usr/local/sbin/pkg - not found ===> Verifying install for /usr/local/sbin/pkg in /buildshare/ports/355755/ports-mgmt/pkg ===> Installing existing package /packages/pkg-1.2.7_2.txz Installing pkg-1.2.7_2... done If you are upgrading from the old package format, first run: # pkg2ng ===> Returning to build of pycogent-1.5.3_2 ===> pycogent-1.5.3_2 depends on file: /usr/local/lib/python2.7/site-packages/numpy/core/numeric.py - not found ===> Verifying install for /usr/local/lib/python2.7/site-packages/numpy/core/numeric.py in /buildshare/ports/355755/math/py-numpy ===> Installing existing package /packages/py27-numpy-1.8.0_2,1.txz Installing py27-numpy-1.8.0_2,1...Installing blas-3.4.2_2...Installing gcc-4.7.3_1...Installing binutils-2.24...Installing gettext-0.18.3.1_1... done done Installing gmp-5.1.3_2... done Installing mpc-1.0.2...Installing mpfr-3.1.2_2... done done done done Installing lapack-3.4.2_2... done Installing py27-nose-1.3.0_1...Installing py27-setuptools27-2.0.1...Installing python27-2.7.6_4... done done done Installing suitesparse-4.0.2_3... done done To ensure binaries built with this toolchain find appropriate versions of the necessary run-time libraries, you may want to link using -Wl,-rpath=/usr/local/lib/gcc47 For ports leveraging USE_GCC, USES=compiler, or USES=fortran this happens transparently. ==== Note that some of the standard modules are provided as separate ports since they require extra dependencies: bsddb databases/py-bsddb gdbm databases/py-gdbm sqlite3 databases/py-sqlite3 tkinter x11-toolkits/py-tkinter Install them as needed. ==== ===> Returning to build of pycogent-1.5.3_2 ===> pycogent-1.5.3_2 depends on file: /usr/local/bin/cython - not found ===> Verifying install for /usr/local/bin/cython in /buildshare/ports/355755/lang/cython ===> Installing existing package /packages/cython-0.20.1.txz Installing cython-0.20.1... done ===> Returning to build of pycogent-1.5.3_2 ===> pycogent-1.5.3_2 depends on file: /usr/local/bin/sphinx-build - not found ===> Verifying install for /usr/local/bin/sphinx-build in /buildshare/ports/355755/textproc/py-sphinx ===> Installing existing package /packages/py27-sphinx-1.2.2.txz Installing py27-sphinx-1.2.2...Installing py27-Jinja2-2.7.2_1...Installing py27-Babel-1.3_1...Installing py27-pytz-2014.3,1... done 185 207 done Installing py27-MarkupSafe-0.23... done done Installing py27-docutils-0.11... done Installing py27-pygments-1.6_2... done 207 232 done ===> Returning to build of pycogent-1.5.3_2 ===> pycogent-1.5.3_2 depends on package: py27-sqlalchemy06>=0.5 - not found ===> Verifying install for py27-sqlalchemy06>=0.5 in /buildshare/ports/355755/databases/py-sqlalchemy06 ===> Installing existing package /packages/py27-sqlalchemy06-0.6.9.txz Installing py27-sqlalchemy06-0.6.9...Installing py27-MySQLdb-1.2.3_4...Installing mysql55-client-5.5.37... done Installing python2-2_2... done done Installing py27-psycopg2-2.5.3...Installing postgresql92-client-9.2.8_1...Installing libxml2-2.9.1_1... done done done Installing py27-sqlite3-2.7.6_3...Installing sqlite3-3.8.4.3... done done 232 261 done The PostgreSQL port has a collection of "side orders": postgresql-docs For all of the html documentation p5-Pg A perl5 API for client access to PostgreSQL databases. postgresql-tcltk If you want tcl/tk client support. postgresql-jdbc For Java JDBC support. postgresql-odbc For client access from unix applications using ODBC as access method. Not needed to access unix PostgreSQL servers from Win32 using ODBC. See below. ruby-postgres, py-PyGreSQL For client access to PostgreSQL databases using the ruby & python languages. postgresql-plperl, postgresql-pltcl & postgresql-plruby For using perl5, tcl & ruby as procedural languages. postgresql-contrib Lots of contributed utilities, postgresql functions and datatypes. There you find pg_standby, pgcrypto and many other cool things. etc... ===> Returning to build of pycogent-1.5.3_2 ===> pycogent-1.5.3_2 depends on package: py27-setuptools27>0 - found ===> pycogent-1.5.3_2 depends on file: /usr/local/bin/python2.7 - found ===> pycogent-1.5.3_2 depends on file: /usr/local/lib/python2.7/site-packages/numpy/core/numeric.py - found ===> pycogent-1.5.3_2 depends on file: /usr/local/bin/cython - found ===> pycogent-1.5.3_2 depends on file: /usr/local/bin/sphinx-build - found ===> pycogent-1.5.3_2 depends on package: py27-sqlalchemy06>=0.5 - found ===> pycogent-1.5.3_2 depends on package: py27-setuptools27>0 - found ===> pycogent-1.5.3_2 depends on file: /usr/local/bin/python2.7 - found Make install ===> License GPLv2 accepted by the user ===> pycogent-1.5.3_2 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by pycogent-1.5.3_2 for building ===> Extracting for pycogent-1.5.3_2 => SHA256 Checksum OK for PyCogent-1.5.3.tgz. ===> Patching for pycogent-1.5.3_2 ===> pycogent-1.5.3_2 depends on file: /usr/local/lib/python2.7/site-packages/numpy/core/numeric.py - found ===> pycogent-1.5.3_2 depends on file: /usr/local/bin/cython - found ===> pycogent-1.5.3_2 depends on file: /usr/local/bin/sphinx-build - found ===> pycogent-1.5.3_2 depends on package: py27-sqlalchemy06>=0.5 - found ===> pycogent-1.5.3_2 depends on package: py27-setuptools27>0 - found ===> pycogent-1.5.3_2 depends on file: /usr/local/bin/python2.7 - found ===> Configuring for pycogent-1.5.3_2 running config ===> Building for pycogent-1.5.3_2 running build running build_py creating build creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7 creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent copying cogent/__init__.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align copying cogent/align/indel_positions.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align copying cogent/align/traceback.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align copying cogent/align/pairwise.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align copying cogent/align/__init__.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align copying cogent/align/algorithm.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align copying cogent/align/pycompare.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align copying cogent/align/progressive.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align copying cogent/align/align.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align copying cogent/align/dp_calculation.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align copying cogent/align/indel_model.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/weights copying cogent/align/weights/__init__.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/weights copying cogent/align/weights/util.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/weights copying cogent/align/weights/methods.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/weights creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/knetfold.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/stride.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/comrna.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/sfold.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/clustalw.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/foldalign.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/__init__.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/rnaview.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/parsinsert.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/cmfinder.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/msms.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/clearcut.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/rdp_classifier.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/dotur.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/muscle.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/fasttree.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/dialign.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/rdp_classifier20.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/contrafold.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/usearch.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/fasttree_v1.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/cd_hit.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/ilm.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/util.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/infernal.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/mafft.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/mfold.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/blat.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/mothur.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/unafold.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/nupack.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/raxml.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/raxml_v730.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/uclust.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/muscle_v38.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/rnaalifold.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/vienna_package.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/rtax.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/parameters.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/blast.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/sfffile.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/consan.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/pfold.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/cove.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/pplacer.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/rnashapes.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/rnaforester.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/guppy.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/dynalign.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/carnac.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/sffinfo.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/formatdb.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/pknotsrg.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/gctmpca.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app copying cogent/app/bwa.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/cluster copying cogent/cluster/goodness_of_fit.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/cluster copying cogent/cluster/__init__.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/cluster copying cogent/cluster/metric_scaling.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/cluster copying cogent/cluster/nmds.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/cluster copying cogent/cluster/UPGMA.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/cluster copying cogent/cluster/procrustes.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/cluster copying cogent/cluster/approximate_mds.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/cluster creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core copying cogent/core/sequence.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core copying cogent/core/tree.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core copying cogent/core/__init__.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core copying cogent/core/profile.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core copying cogent/core/entity.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core copying cogent/core/bitvector.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core copying cogent/core/location.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core copying cogent/core/alphabet.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core copying cogent/core/annotation.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core copying cogent/core/alignment.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core copying cogent/core/usage.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core copying cogent/core/info.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core copying cogent/core/genetic_code.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core copying cogent/core/moltype.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/data copying cogent/data/nucleic_properties.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/data copying cogent/data/__init__.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/data copying cogent/data/protein_properties.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/data copying cogent/data/ligand_properties.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/data copying cogent/data/molecular_weight.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/data copying cogent/data/energy_params.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/data creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db copying cogent/db/__init__.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db copying cogent/db/ncbi.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db copying cogent/db/pdb.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db copying cogent/db/util.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db copying cogent/db/rfam.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl copying cogent/db/ensembl/sequence.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl copying cogent/db/ensembl/feature_level.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl copying cogent/db/ensembl/region.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl copying cogent/db/ensembl/compara.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl copying cogent/db/ensembl/__init__.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl copying cogent/db/ensembl/assembly.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl copying cogent/db/ensembl/related_region.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl copying cogent/db/ensembl/genome.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl copying cogent/db/ensembl/host.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl copying cogent/db/ensembl/name.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl copying cogent/db/ensembl/util.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl copying cogent/db/ensembl/database.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl copying cogent/db/ensembl/species.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw copying cogent/draw/codon_usage.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw copying cogent/draw/dinuc.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw copying cogent/draw/__init__.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw copying cogent/draw/arrow_rates.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw copying cogent/draw/fancy_arrow.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw copying cogent/draw/compatibility.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw copying cogent/draw/util.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw copying cogent/draw/legend.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw copying cogent/draw/multivariate_plot.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw copying cogent/draw/distribution_plots.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw copying cogent/draw/linear.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw copying cogent/draw/dendrogram.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw copying cogent/draw/dotplot.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw copying cogent/draw/rlg2mpl.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve copying cogent/evolve/substitution_model.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve copying cogent/evolve/models.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve copying cogent/evolve/parameter_controller.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve copying cogent/evolve/motif_prob_model.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve copying cogent/evolve/__init__.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve copying cogent/evolve/likelihood_calculation.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve copying cogent/evolve/discrete_markov.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve copying cogent/evolve/likelihood_function.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve copying cogent/evolve/simulate.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve copying cogent/evolve/substitution_calculation.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve copying cogent/evolve/solved_models.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve copying cogent/evolve/pairwise_distance.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve copying cogent/evolve/coevolution.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve copying cogent/evolve/predicate.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve copying cogent/evolve/likelihood_tree.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve copying cogent/evolve/best_likelihood.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve copying cogent/evolve/bootstrap.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format copying cogent/format/mage.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format copying cogent/format/motif.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format copying cogent/format/__init__.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format copying cogent/format/phylip.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format copying cogent/format/table.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format copying cogent/format/pdb.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format copying cogent/format/structure.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format copying cogent/format/rna_struct.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format copying cogent/format/bedgraph.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format copying cogent/format/xyzrn.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format copying cogent/format/pdb_color.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format copying cogent/format/alignment.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format copying cogent/format/clustal.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format copying cogent/format/fasta.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format copying cogent/format/text_tree.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format copying cogent/format/stockholm.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format copying cogent/format/nexus.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths copying cogent/maths/period.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths copying cogent/maths/fit_function.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths copying cogent/maths/geometry.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths copying cogent/maths/svd.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths copying cogent/maths/optimisers.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths copying cogent/maths/matrix_exponentiation.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths copying cogent/maths/__init__.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths copying cogent/maths/distance_transform.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths copying cogent/maths/markov.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths copying cogent/maths/simannealingoptimiser.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths copying cogent/maths/scipy_optimisers.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths copying cogent/maths/scipy_optimize.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths copying cogent/maths/solve.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths copying cogent/maths/function_optimisation.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths copying cogent/maths/matrix_logarithm.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/matrix copying cogent/maths/matrix/__init__.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/matrix copying cogent/maths/matrix/distance.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/matrix creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats copying cogent/maths/stats/rarefaction.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats copying cogent/maths/stats/period.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats copying cogent/maths/stats/special.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats copying cogent/maths/stats/__init__.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats copying cogent/maths/stats/ks.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats copying cogent/maths/stats/util.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats copying cogent/maths/stats/test.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats copying cogent/maths/stats/alpha_diversity.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats copying cogent/maths/stats/jackknife.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats copying cogent/maths/stats/histogram.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats copying cogent/maths/stats/kendall.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats copying cogent/maths/stats/distribution.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats copying cogent/maths/stats/information_criteria.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats/cai copying cogent/maths/stats/cai/adaptor.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats/cai copying cogent/maths/stats/cai/__init__.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats/cai copying cogent/maths/stats/cai/util.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats/cai copying cogent/maths/stats/cai/get_by_cai.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats/cai creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/unifrac copying cogent/maths/unifrac/__init__.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/unifrac copying cogent/maths/unifrac/fast_unifrac.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/unifrac copying cogent/maths/unifrac/fast_tree.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/unifrac creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/spatial copying cogent/maths/spatial/__init__.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/spatial creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/motif copying cogent/motif/k_word.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/motif copying cogent/motif/__init__.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/motif copying cogent/motif/util.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/motif creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/fastq.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/knetfold.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/sequence.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/cutg.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/flowgram.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/mage.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/tree.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/flowgram_collection.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/stride.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/kegg_pos.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/aaindex.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/cigar.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/bowtie.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/ncbi_taxonomy.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/ebi.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/comrna.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/psl.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/sfold.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/tree_xml.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/rna_plot.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/foldalign.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/blast_xml.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/binary_sff.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/__init__.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/rnaview.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/bpseq.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/cut.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/cmfinder.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/msms.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/kegg_taxonomy.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/phylip.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/table.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/dotur.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/locuslink.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/dialign.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/contrafold.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/gibbs.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/kegg_fasta.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/gcg.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/agilent_microarray.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/pdb.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/ilm.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/structure.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/paml.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/infernal.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/mfold.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/macsim.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/gbseq.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/mothur.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/record_finder.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/unafold.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/nupack.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/greengenes.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/illumina_sequence.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/ct.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/rnaalifold.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/kegg_ko.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/paml_matrix.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/genbank.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/clustal.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/fasta.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/blast.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/consan.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/pfold.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/cove.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/meme.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/rfam.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/rnashapes.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/stockholm.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/rnaforester.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/rna_fold.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/tinyseq.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/column.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/dynalign.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/carnac.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/flowgram_parser.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/newick.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/rdb.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/pknotsrg.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/nexus.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/record.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/sprinzl.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/gff.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse copying cogent/parse/unigene.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/phylo copying cogent/phylo/least_squares.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/phylo copying cogent/phylo/maximum_likelihood.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/phylo copying cogent/phylo/tree_space.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/phylo copying cogent/phylo/__init__.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/phylo copying cogent/phylo/consensus.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/phylo copying cogent/phylo/nj.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/phylo copying cogent/phylo/tree_collection.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/phylo copying cogent/phylo/util.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/phylo copying cogent/phylo/distance.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/phylo creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/recalculation copying cogent/recalculation/definition.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/recalculation copying cogent/recalculation/__init__.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/recalculation copying cogent/recalculation/scope.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/recalculation copying cogent/recalculation/calculation.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/recalculation copying cogent/recalculation/setting.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/recalculation creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/seqsim copying cogent/seqsim/tree.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/seqsim copying cogent/seqsim/analysis.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/seqsim copying cogent/seqsim/birth_death.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/seqsim copying cogent/seqsim/__init__.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/seqsim copying cogent/seqsim/markov.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/seqsim copying cogent/seqsim/microarray.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/seqsim copying cogent/seqsim/randomization.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/seqsim copying cogent/seqsim/searchpath.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/seqsim copying cogent/seqsim/microarray_normalize.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/seqsim copying cogent/seqsim/usage.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/seqsim copying cogent/seqsim/sequence_generators.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/seqsim creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct copying cogent/struct/pairs_util.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct copying cogent/struct/dihedral.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct copying cogent/struct/contact.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct copying cogent/struct/rna2d.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct copying cogent/struct/asa.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct copying cogent/struct/__init__.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct copying cogent/struct/selection.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct copying cogent/struct/knots.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct copying cogent/struct/manipulation.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct copying cogent/struct/annotation.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct creating build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util copying cogent/util/modules.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util copying cogent/util/option_parsing.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util copying cogent/util/__init__.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util copying cogent/util/transform.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util copying cogent/util/unit_test.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util copying cogent/util/table.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util copying cogent/util/trie.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util copying cogent/util/progress_display.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util copying cogent/util/array.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util copying cogent/util/parallel.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util copying cogent/util/misc.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util copying cogent/util/update_version.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util copying cogent/util/organizer.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util copying cogent/util/terminal.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util copying cogent/util/recode_alignment.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util copying cogent/util/dict2d.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util copying cogent/util/checkpointing.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util copying cogent/util/datatypes.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util copying cogent/util/warning.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util copying cogent/util/dict_array.py -> build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util running build_ext skipping 'cogent/align/_compare.c' Cython extension (up-to-date) building 'cogent.align._compare' extension creating build/temp.freebsd-11.0-CURRENT-powerpc-2.7 creating build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent creating build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align cc -DNDEBUG -O2 -pipe -fno-strict-aliasing -fPIC -I/obj/buildshare/ports/355755/biology/pycogent/work/PyCogent-1.5.3/include -I/usr/local/lib/python2.7/site-packages/numpy/core/include -I/usr/local/include/python2.7 -c cogent/align/_compare.c -o build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/_compare.o cc -shared -O2 -pipe -fno-strict-aliasing build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/_compare.o -o build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/_compare.so skipping 'cogent/align/_pairwise_seqs.c' Cython extension (up-to-date) building 'cogent.align._pairwise_seqs' extension cc -DNDEBUG -O2 -pipe -fno-strict-aliasing -fPIC -I/obj/buildshare/ports/355755/biology/pycogent/work/PyCogent-1.5.3/include -I/usr/local/lib/python2.7/site-packages/numpy/core/include -I/usr/local/include/python2.7 -c cogent/align/_pairwise_seqs.c -o build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/_pairwise_seqs.o cc -shared -O2 -pipe -fno-strict-aliasing build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/_pairwise_seqs.o -o build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/_pairwise_seqs.so skipping 'cogent/align/_pairwise_pogs.c' Cython extension (up-to-date) building 'cogent.align._pairwise_pogs' extension cc -DNDEBUG -O2 -pipe -fno-strict-aliasing -fPIC -I/obj/buildshare/ports/355755/biology/pycogent/work/PyCogent-1.5.3/include -I/usr/local/lib/python2.7/site-packages/numpy/core/include -I/usr/local/include/python2.7 -c cogent/align/_pairwise_pogs.c -o build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/_pairwise_pogs.o cc -shared -O2 -pipe -fno-strict-aliasing build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/_pairwise_pogs.o -o build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/_pairwise_pogs.so skipping 'cogent/evolve/_solved_models.c' Cython extension (up-to-date) building 'cogent.evolve._solved_models' extension creating build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve cc -DNDEBUG -O2 -pipe -fno-strict-aliasing -fPIC -I/obj/buildshare/ports/355755/biology/pycogent/work/PyCogent-1.5.3/include -I/usr/local/lib/python2.7/site-packages/numpy/core/include -I/usr/local/include/python2.7 -c cogent/evolve/_solved_models.c -o build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/_solved_models.o cc -shared -O2 -pipe -fno-strict-aliasing build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/_solved_models.o -o build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/_solved_models.so skipping 'cogent/evolve/_likelihood_tree.c' Cython extension (up-to-date) building 'cogent.evolve._likelihood_tree' extension cc -DNDEBUG -O2 -pipe -fno-strict-aliasing -fPIC -I/obj/buildshare/ports/355755/biology/pycogent/work/PyCogent-1.5.3/include -I/usr/local/lib/python2.7/site-packages/numpy/core/include -I/usr/local/include/python2.7 -c cogent/evolve/_likelihood_tree.c -o build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/_likelihood_tree.o cc -shared -O2 -pipe -fno-strict-aliasing build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/_likelihood_tree.o -o build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/_likelihood_tree.so skipping 'cogent/evolve/_pairwise_distance.c' Cython extension (up-to-date) building 'cogent.evolve._pairwise_distance' extension cc -DNDEBUG -O2 -pipe -fno-strict-aliasing -fPIC -I/obj/buildshare/ports/355755/biology/pycogent/work/PyCogent-1.5.3/include -I/usr/local/lib/python2.7/site-packages/numpy/core/include -I/usr/local/include/python2.7 -c cogent/evolve/_pairwise_distance.c -o build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/_pairwise_distance.o In file included from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1760, from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17, from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4, from cogent/evolve/_pairwise_distance.c:275: /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" cc -shared -O2 -pipe -fno-strict-aliasing build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/_pairwise_distance.o -o build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/_pairwise_distance.so skipping 'cogent/struct/_asa.c' Cython extension (up-to-date) building 'cogent.struct._asa' extension creating build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct cc -DNDEBUG -O2 -pipe -fno-strict-aliasing -fPIC -I/obj/buildshare/ports/355755/biology/pycogent/work/PyCogent-1.5.3/include -I/usr/local/lib/python2.7/site-packages/numpy/core/include -I/usr/local/include/python2.7 -c cogent/struct/_asa.c -o build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct/_asa.o In file included from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1760, from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17, from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4, from cogent/struct/_asa.c:275: /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" cc -shared -O2 -pipe -fno-strict-aliasing build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct/_asa.o -o build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct/_asa.so skipping 'cogent/struct/_contact.c' Cython extension (up-to-date) building 'cogent.struct._contact' extension cc -DNDEBUG -O2 -pipe -fno-strict-aliasing -fPIC -I/obj/buildshare/ports/355755/biology/pycogent/work/PyCogent-1.5.3/include -I/usr/local/lib/python2.7/site-packages/numpy/core/include -I/usr/local/include/python2.7 -c cogent/struct/_contact.c -o build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct/_contact.o In file included from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1760, from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17, from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4, from cogent/struct/_contact.c:275: /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" cc -shared -O2 -pipe -fno-strict-aliasing build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct/_contact.o -o build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct/_contact.so skipping 'cogent/maths/_period.c' Cython extension (up-to-date) building 'cogent.maths._period' extension creating build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths cc -DNDEBUG -O2 -pipe -fno-strict-aliasing -fPIC -I/obj/buildshare/ports/355755/biology/pycogent/work/PyCogent-1.5.3/include -I/usr/local/lib/python2.7/site-packages/numpy/core/include -I/usr/local/include/python2.7 -c cogent/maths/_period.c -o build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/_period.o In file included from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1760, from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17, from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4, from cogent/maths/_period.c:275: /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" cc -shared -O2 -pipe -fno-strict-aliasing build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/_period.o -o build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/_period.so skipping 'cogent/maths/spatial/ckd3.c' Cython extension (up-to-date) building 'cogent.maths.spatial.ckd3' extension creating build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/spatial cc -DNDEBUG -O2 -pipe -fno-strict-aliasing -fPIC -I/obj/buildshare/ports/355755/biology/pycogent/work/PyCogent-1.5.3/include -I/usr/local/lib/python2.7/site-packages/numpy/core/include -I/usr/local/include/python2.7 -c cogent/maths/spatial/ckd3.c -o build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/spatial/ckd3.o In file included from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1760, from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17, from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4, from cogent/maths/spatial/ckd3.c:275: /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" cc -shared -O2 -pipe -fno-strict-aliasing build/temp.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/spatial/ckd3.o -o build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/spatial/ckd3.so ===> Staging for pycogent-1.5.3_2 ===> pycogent-1.5.3_2 depends on file: /usr/local/lib/python2.7/site-packages/numpy/core/numeric.py - found ===> pycogent-1.5.3_2 depends on file: /usr/local/bin/cython - found ===> pycogent-1.5.3_2 depends on file: /usr/local/bin/sphinx-build - found ===> pycogent-1.5.3_2 depends on package: py27-sqlalchemy06>=0.5 - found ===> pycogent-1.5.3_2 depends on package: py27-setuptools27>0 - found ===> pycogent-1.5.3_2 depends on file: /usr/local/bin/python2.7 - found ===> Generating temporary packing list running install running build running build_py running build_ext skipping 'cogent/align/_compare.c' Cython extension (up-to-date) skipping 'cogent/align/_pairwise_seqs.c' Cython extension (up-to-date) skipping 'cogent/align/_pairwise_pogs.c' Cython extension (up-to-date) skipping 'cogent/evolve/_solved_models.c' Cython extension (up-to-date) skipping 'cogent/evolve/_likelihood_tree.c' Cython extension (up-to-date) skipping 'cogent/evolve/_pairwise_distance.c' Cython extension (up-to-date) skipping 'cogent/struct/_asa.c' Cython extension (up-to-date) skipping 'cogent/struct/_contact.c' Cython extension (up-to-date) skipping 'cogent/maths/_period.c' Cython extension (up-to-date) skipping 'cogent/maths/spatial/ckd3.c' Cython extension (up-to-date) running install_lib creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7 creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/knetfold.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/stride.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/comrna.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/sfold.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/clustalw.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/foldalign.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/__init__.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/rnaview.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/parsinsert.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/cmfinder.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/msms.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/clearcut.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/rdp_classifier.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/dotur.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/muscle.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/fasttree.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/dialign.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/rdp_classifier20.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/contrafold.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/usearch.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/fasttree_v1.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/cd_hit.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/ilm.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/util.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/infernal.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/mafft.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/mfold.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/blat.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/mothur.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/unafold.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/nupack.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/raxml.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/raxml_v730.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/uclust.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/muscle_v38.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/rnaalifold.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/vienna_package.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/rtax.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/parameters.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/blast.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/sfffile.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/consan.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/pfold.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/cove.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/pplacer.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/rnashapes.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/rnaforester.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/guppy.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/dynalign.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/carnac.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/sffinfo.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/formatdb.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/pknotsrg.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/gctmpca.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/app/bwa.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/substitution_model.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/models.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/parameter_controller.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/motif_prob_model.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/__init__.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/likelihood_calculation.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/discrete_markov.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/_solved_models.so -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/likelihood_function.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/_likelihood_tree.so -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/simulate.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/_pairwise_distance.so -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/substitution_calculation.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/solved_models.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/pairwise_distance.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/coevolution.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/predicate.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/likelihood_tree.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/best_likelihood.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/evolve/bootstrap.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util/modules.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util/option_parsing.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util/__init__.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util/transform.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util/unit_test.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util/table.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util/trie.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util/progress_display.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util/array.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util/parallel.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util/misc.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util/update_version.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util/organizer.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util/terminal.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util/recode_alignment.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util/dict2d.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util/checkpointing.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util/datatypes.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util/warning.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/util/dict_array.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/motif copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/motif/k_word.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/motif copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/motif/__init__.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/motif copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/motif/util.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/motif creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/struct copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct/pairs_util.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/struct copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct/dihedral.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/struct copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct/contact.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/struct copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct/rna2d.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/struct copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct/asa.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/struct copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct/__init__.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/struct copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct/selection.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/struct copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct/knots.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/struct copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct/manipulation.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/struct copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct/_asa.so -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/struct copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct/annotation.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/struct copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/struct/_contact.so -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/struct creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/seqsim copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/seqsim/tree.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/seqsim copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/seqsim/analysis.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/seqsim copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/seqsim/birth_death.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/seqsim copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/seqsim/__init__.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/seqsim copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/seqsim/markov.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/seqsim copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/seqsim/microarray.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/seqsim copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/seqsim/randomization.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/seqsim copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/seqsim/searchpath.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/seqsim copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/seqsim/microarray_normalize.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/seqsim copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/seqsim/usage.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/seqsim copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/seqsim/sequence_generators.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/seqsim copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/__init__.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/core copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core/sequence.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/core copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core/tree.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/core copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core/__init__.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/core copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core/profile.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/core copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core/entity.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/core copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core/bitvector.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/core copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core/location.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/core copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core/alphabet.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/core copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core/annotation.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/core copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core/alignment.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/core copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core/usage.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/core copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core/info.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/core copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core/genetic_code.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/core copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/core/moltype.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/core creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/fastq.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/knetfold.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/sequence.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/cutg.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/flowgram.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/mage.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/tree.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/flowgram_collection.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/stride.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/kegg_pos.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/aaindex.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/cigar.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/bowtie.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/ncbi_taxonomy.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/ebi.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/comrna.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/psl.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/sfold.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/tree_xml.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/rna_plot.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/foldalign.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/blast_xml.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/binary_sff.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/__init__.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/rnaview.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/bpseq.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/cut.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/cmfinder.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/msms.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/kegg_taxonomy.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/phylip.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/table.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/dotur.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/locuslink.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/dialign.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/contrafold.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/gibbs.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/kegg_fasta.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/gcg.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/agilent_microarray.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/pdb.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/ilm.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/structure.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/paml.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/infernal.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/mfold.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/macsim.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/gbseq.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/mothur.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/record_finder.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/unafold.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/nupack.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/greengenes.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/illumina_sequence.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/ct.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/rnaalifold.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/kegg_ko.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/paml_matrix.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/genbank.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/clustal.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/fasta.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/blast.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/consan.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/pfold.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/cove.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/meme.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/rfam.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/rnashapes.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/stockholm.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/rnaforester.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/rna_fold.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/tinyseq.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/column.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/dynalign.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/carnac.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/flowgram_parser.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/newick.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/rdb.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/pknotsrg.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/nexus.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/record.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/sprinzl.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/gff.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/parse/unigene.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/cluster copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/cluster/goodness_of_fit.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/cluster copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/cluster/__init__.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/cluster copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/cluster/metric_scaling.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/cluster copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/cluster/nmds.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/cluster copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/cluster/UPGMA.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/cluster copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/cluster/procrustes.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/cluster copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/cluster/approximate_mds.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/cluster creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format/mage.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format/motif.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format/__init__.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format/phylip.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format/table.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format/pdb.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format/structure.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format/rna_struct.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format/bedgraph.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format/xyzrn.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format/pdb_color.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format/alignment.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format/clustal.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format/fasta.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format/text_tree.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format/stockholm.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/format/nexus.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/_pairwise_seqs.so -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/indel_positions.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/traceback.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/pairwise.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/__init__.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/algorithm.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/pycompare.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/progressive.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/align.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align/weights copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/weights/__init__.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align/weights copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/weights/util.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align/weights copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/weights/methods.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align/weights copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/dp_calculation.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/_compare.so -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/_pairwise_pogs.so -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/align/indel_model.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/db creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/db/ensembl copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl/sequence.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/db/ensembl copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl/feature_level.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/db/ensembl copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl/region.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/db/ensembl copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl/compara.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/db/ensembl copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl/__init__.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/db/ensembl copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl/assembly.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/db/ensembl copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl/related_region.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/db/ensembl copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl/genome.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/db/ensembl copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl/host.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/db/ensembl copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl/name.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/db/ensembl copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl/util.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/db/ensembl copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl/database.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/db/ensembl copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ensembl/species.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/db/ensembl copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/__init__.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/db copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/ncbi.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/db copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/pdb.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/db copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/util.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/db copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/db/rfam.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/db creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/data copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/data/nucleic_properties.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/data copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/data/__init__.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/data copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/data/protein_properties.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/data copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/data/ligand_properties.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/data copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/data/molecular_weight.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/data copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/data/energy_params.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/data creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/phylo copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/phylo/least_squares.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/phylo copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/phylo/maximum_likelihood.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/phylo copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/phylo/tree_space.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/phylo copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/phylo/__init__.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/phylo copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/phylo/consensus.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/phylo copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/phylo/nj.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/phylo copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/phylo/tree_collection.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/phylo copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/phylo/util.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/phylo copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/phylo/distance.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/phylo creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/recalculation copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/recalculation/definition.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/recalculation copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/recalculation/__init__.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/recalculation copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/recalculation/scope.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/recalculation copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/recalculation/calculation.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/recalculation copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/recalculation/setting.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/recalculation creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/period.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/fit_function.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/geometry.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/matrix copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/matrix/__init__.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/matrix copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/matrix/distance.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/matrix copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/svd.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/optimisers.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/matrix_exponentiation.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats/rarefaction.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats/period.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats/special.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats/__init__.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats/ks.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats/util.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats/test.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats/cai copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats/cai/adaptor.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats/cai copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats/cai/__init__.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats/cai copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats/cai/util.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats/cai copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats/cai/get_by_cai.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats/cai copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats/alpha_diversity.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats/jackknife.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats/histogram.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats/kendall.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats/distribution.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/stats/information_criteria.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/unifrac copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/unifrac/__init__.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/unifrac copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/unifrac/fast_unifrac.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/unifrac copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/unifrac/fast_tree.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/unifrac copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/__init__.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/spatial copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/spatial/__init__.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/spatial copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/spatial/ckd3.so -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/spatial copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/distance_transform.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/markov.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/simannealingoptimiser.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/scipy_optimisers.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/scipy_optimize.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/solve.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/function_optimisation.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/_period.so -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/maths/matrix_logarithm.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths creating /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw/codon_usage.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw/dinuc.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw/__init__.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw/arrow_rates.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw/fancy_arrow.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw/compatibility.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw/util.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw/legend.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw/multivariate_plot.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw/distribution_plots.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw/linear.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw/dendrogram.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw/dotplot.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw copying build/lib.freebsd-11.0-CURRENT-powerpc-2.7/cogent/draw/rlg2mpl.py -> /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/knetfold.py to knetfold.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/stride.py to stride.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/comrna.py to comrna.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/sfold.py to sfold.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/clustalw.py to clustalw.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/foldalign.py to foldalign.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/__init__.py to __init__.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/rnaview.py to rnaview.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/parsinsert.py to parsinsert.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/cmfinder.py to cmfinder.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/msms.py to msms.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/clearcut.py to clearcut.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/rdp_classifier.py to rdp_classifier.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/dotur.py to dotur.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/muscle.py to muscle.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/fasttree.py to fasttree.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/dialign.py to dialign.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/rdp_classifier20.py to rdp_classifier20.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/contrafold.py to contrafold.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/usearch.py to usearch.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/fasttree_v1.py to fasttree_v1.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/cd_hit.py to cd_hit.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/ilm.py to ilm.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/util.py to util.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/infernal.py to infernal.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/mafft.py to mafft.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/mfold.py to mfold.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/blat.py to blat.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/mothur.py to mothur.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/unafold.py to unafold.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/nupack.py to nupack.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/raxml.py to raxml.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/raxml_v730.py to raxml_v730.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/uclust.py to uclust.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/muscle_v38.py to muscle_v38.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/rnaalifold.py to rnaalifold.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/vienna_package.py to vienna_package.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/rtax.py to rtax.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/parameters.py to parameters.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/blast.py to blast.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/sfffile.py to sfffile.pyc byte-compiling 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guppy.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/dynalign.py to dynalign.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/carnac.py to carnac.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/sffinfo.py to sffinfo.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/formatdb.py to formatdb.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/pknotsrg.py to pknotsrg.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/gctmpca.py to gctmpca.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/app/bwa.py to bwa.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve/substitution_model.py to substitution_model.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve/models.py to models.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve/parameter_controller.py to parameter_controller.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve/motif_prob_model.py to motif_prob_model.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve/__init__.py to __init__.pyc byte-compiling 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solved_models.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve/pairwise_distance.py to pairwise_distance.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve/coevolution.py to coevolution.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve/predicate.py to predicate.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve/likelihood_tree.py to likelihood_tree.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve/best_likelihood.py to best_likelihood.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/evolve/bootstrap.py to bootstrap.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util/modules.py to modules.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util/option_parsing.py to option_parsing.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util/__init__.py to __init__.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util/transform.py to transform.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util/unit_test.py to unit_test.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/util/table.py to table.pyc byte-compiling 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/obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/struct/dihedral.py to dihedral.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/struct/contact.py to contact.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/struct/rna2d.py to rna2d.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/struct/asa.py to asa.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/struct/__init__.py to __init__.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/struct/selection.py to selection.pyc byte-compiling 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/obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/seqsim/__init__.py to __init__.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/seqsim/markov.py to markov.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/seqsim/microarray.py to microarray.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/seqsim/randomization.py to randomization.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/seqsim/searchpath.py to searchpath.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/seqsim/microarray_normalize.py to microarray_normalize.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/seqsim/usage.py to usage.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/seqsim/sequence_generators.py to sequence_generators.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/__init__.py to __init__.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/core/sequence.py to sequence.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/core/tree.py to tree.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/core/__init__.py to __init__.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/core/profile.py to profile.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/core/entity.py to entity.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/core/bitvector.py to bitvector.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/core/location.py to location.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/core/alphabet.py to alphabet.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/core/annotation.py to annotation.pyc byte-compiling 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/obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/bpseq.py to bpseq.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/cut.py to cut.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/cmfinder.py to cmfinder.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/msms.py to msms.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/kegg_taxonomy.py to kegg_taxonomy.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/phylip.py to phylip.pyc byte-compiling 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/obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/paml.py to paml.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/infernal.py to infernal.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/mfold.py to mfold.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/macsim.py to macsim.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/gbseq.py to gbseq.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/mothur.py to mothur.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/record_finder.py to record_finder.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/unafold.py to unafold.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/nupack.py to nupack.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/greengenes.py to greengenes.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/illumina_sequence.py to illumina_sequence.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/ct.py to ct.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/rnaalifold.py to rnaalifold.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/kegg_ko.py to kegg_ko.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/paml_matrix.py to paml_matrix.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/genbank.py to genbank.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/clustal.py to clustal.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/fasta.py to fasta.pyc byte-compiling 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rnashapes.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/stockholm.py to stockholm.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/rnaforester.py to rnaforester.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/rna_fold.py to rna_fold.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/tinyseq.py to tinyseq.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/column.py to column.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/dynalign.py to dynalign.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/carnac.py to carnac.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/flowgram_parser.py to flowgram_parser.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/newick.py to newick.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/rdb.py to rdb.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/pknotsrg.py to pknotsrg.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/nexus.py to nexus.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/record.py to record.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/sprinzl.py to sprinzl.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/gff.py to gff.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/parse/unigene.py to unigene.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/cluster/goodness_of_fit.py to goodness_of_fit.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/cluster/__init__.py to __init__.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/cluster/metric_scaling.py to metric_scaling.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/cluster/nmds.py to nmds.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/cluster/UPGMA.py to UPGMA.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/cluster/procrustes.py to procrustes.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/cluster/approximate_mds.py to approximate_mds.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format/mage.py to mage.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format/motif.py to motif.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format/__init__.py to __init__.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format/phylip.py to phylip.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format/table.py to table.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format/pdb.py to pdb.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format/structure.py to structure.pyc byte-compiling 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/obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format/fasta.py to fasta.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format/text_tree.py to text_tree.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format/stockholm.py to stockholm.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/format/nexus.py to nexus.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align/indel_positions.py to indel_positions.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align/traceback.py to traceback.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align/pairwise.py to pairwise.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align/__init__.py to __init__.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align/algorithm.py to algorithm.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align/pycompare.py to pycompare.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align/progressive.py to progressive.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/align/align.py to align.pyc byte-compiling 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/obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/db/__init__.py to __init__.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/db/ncbi.py to ncbi.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/db/pdb.py to pdb.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/db/util.py to util.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/db/rfam.py to rfam.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/data/nucleic_properties.py to nucleic_properties.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/data/__init__.py to __init__.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/data/protein_properties.py to protein_properties.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/data/ligand_properties.py to ligand_properties.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/data/molecular_weight.py to molecular_weight.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/data/energy_params.py to energy_params.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/phylo/least_squares.py to least_squares.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/phylo/maximum_likelihood.py to maximum_likelihood.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/phylo/tree_space.py to tree_space.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/phylo/__init__.py to __init__.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/phylo/consensus.py to consensus.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/phylo/nj.py to nj.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/phylo/tree_collection.py to tree_collection.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/phylo/util.py to util.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/phylo/distance.py to distance.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/recalculation/definition.py to definition.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/recalculation/__init__.py to __init__.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/recalculation/scope.py to scope.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/recalculation/calculation.py to calculation.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/recalculation/setting.py to setting.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/period.py to period.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/fit_function.py to fit_function.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/geometry.py to geometry.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/matrix/__init__.py to __init__.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/matrix/distance.py to distance.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/svd.py to svd.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/optimisers.py to optimisers.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/matrix_exponentiation.py to matrix_exponentiation.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats/rarefaction.py to rarefaction.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats/period.py to period.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats/special.py to special.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats/__init__.py to __init__.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats/ks.py to ks.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats/util.py to util.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats/test.py to test.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats/cai/adaptor.py to adaptor.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats/cai/__init__.py to __init__.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats/cai/util.py to util.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats/cai/get_by_cai.py to get_by_cai.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats/alpha_diversity.py to alpha_diversity.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats/jackknife.py to jackknife.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats/histogram.py to histogram.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats/kendall.py to kendall.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats/distribution.py to distribution.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/stats/information_criteria.py to information_criteria.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/unifrac/__init__.py to __init__.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/unifrac/fast_unifrac.py to fast_unifrac.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/unifrac/fast_tree.py to fast_tree.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/__init__.py to __init__.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/spatial/__init__.py to __init__.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/distance_transform.py to distance_transform.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/markov.py to markov.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/simannealingoptimiser.py to simannealingoptimiser.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/scipy_optimisers.py to scipy_optimisers.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/scipy_optimize.py to scipy_optimize.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/solve.py to solve.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/function_optimisation.py to function_optimisation.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/maths/matrix_logarithm.py to matrix_logarithm.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw/codon_usage.py to codon_usage.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw/dinuc.py to dinuc.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw/__init__.py to __init__.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw/arrow_rates.py to arrow_rates.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw/fancy_arrow.py to fancy_arrow.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw/compatibility.py to compatibility.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw/util.py to util.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw/legend.py to legend.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw/multivariate_plot.py to multivariate_plot.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw/distribution_plots.py to distribution_plots.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw/linear.py to linear.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw/dendrogram.py to dendrogram.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw/dotplot.py to dotplot.pyc byte-compiling /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent/draw/rlg2mpl.py to rlg2mpl.pyc writing byte-compilation script '/tmp/tmpmfe8ZW.py' /usr/local/bin/python2.7 -O /tmp/tmpmfe8ZW.py removing /tmp/tmpmfe8ZW.py running install_egg_info running egg_info creating cogent.egg-info writing cogent.egg-info/PKG-INFO writing top-level names to cogent.egg-info/top_level.txt writing dependency_links to cogent.egg-info/dependency_links.txt writing manifest file 'cogent.egg-info/SOURCES.txt' warning: manifest_maker: standard file '-c' not found reading manifest file 'cogent.egg-info/SOURCES.txt' writing manifest file 'cogent.egg-info/SOURCES.txt' Copying cogent.egg-info to /obj/buildshare/ports/355755/biology/pycogent/work/stage/usr/local/lib/python2.7/site-packages/cogent-1.5.3-py2.7.egg-info running install_scripts writing list of installed files to '/obj/buildshare/ports/355755/biology/pycogent/work/.PLIST.pymodtmp' ====> Compressing man pages (compress-man) ===> Installing for pycogent-1.5.3_2 ===> Checking if biology/pycogent already installed ===> Registering installation for pycogent-1.5.3_2 Installing pycogent-1.5.3_2... done Make package ===> Building package for pycogent-1.5.3_2 slot2: removed