2021-07-12T10:14:54,315 Created temporary directory: /tmp/pip-ephem-wheel-cache-ehe_tq8q 2021-07-12T10:14:54,318 Created temporary directory: /tmp/pip-req-tracker-esrg7q9z 2021-07-12T10:14:54,318 Initialized build tracking at /tmp/pip-req-tracker-esrg7q9z 2021-07-12T10:14:54,318 Created build tracker: /tmp/pip-req-tracker-esrg7q9z 2021-07-12T10:14:54,318 Entered build tracker: /tmp/pip-req-tracker-esrg7q9z 2021-07-12T10:14:54,319 Created temporary directory: /tmp/pip-wheel-7yn19oxt 2021-07-12T10:14:54,349 1 location(s) to search for versions of biocode: 2021-07-12T10:14:54,349 * https://pypi.org/simple/biocode/ 2021-07-12T10:14:54,349 Fetching project page and analyzing links: https://pypi.org/simple/biocode/ 2021-07-12T10:14:54,350 Getting page https://pypi.org/simple/biocode/ 2021-07-12T10:14:54,352 Found index url https://pypi.org/simple 2021-07-12T10:14:54,449 Found link https://files.pythonhosted.org/packages/e1/6d/8b417c8c08f02c960801f360bc8b38927a4c14dfee8cb1418978bdfc4946/biocode-0.1.0.tar.gz#sha256=98fb4d531f0a3d940f3f30a71c0c9a59e89063c30eefcbaa3032ed4c8e8eb7ad (from https://pypi.org/simple/biocode/), version: 0.1.0 2021-07-12T10:14:54,449 Found link https://files.pythonhosted.org/packages/96/e5/314879e7d54bee7e0ed6db1fc358d193ae2d118e4825a99d14f3269a9322/biocode-0.1.1.tar.gz#sha256=76bdb70852fc5e7a83f19de8e66074de97bace873dea6a3014b49f4305736fb0 (from https://pypi.org/simple/biocode/), version: 0.1.1 2021-07-12T10:14:54,449 Found link https://files.pythonhosted.org/packages/4e/94/c999970e61e13f3082eae7989bc32d745ef7d846824252dd9a3c09cfd19c/biocode-0.1.2.tar.gz#sha256=d72e37b2f0cefc2081b0888b603d39cf572382b5d966586390e02cb09b708cc9 (from https://pypi.org/simple/biocode/), version: 0.1.2 2021-07-12T10:14:54,450 Found link https://files.pythonhosted.org/packages/a5/2c/85a52abaf0192795d5fbc56842c58c349bc6b58c568b4b913b8fdf591617/biocode-0.1.3.tar.gz#sha256=ec904f8ddd1458821e75e8d2fffa08b2a7dee98c02bec8e5463f55997dda2fb1 (from https://pypi.org/simple/biocode/), version: 0.1.3 2021-07-12T10:14:54,450 Found link https://files.pythonhosted.org/packages/a5/06/562772ff9d04bcfcde87ed1ce76026eaf8f6b15cf7336fc6334bad04db00/biocode-0.1.4.tar.gz#sha256=603bf7f95b963b13a70cddb848e41953897e6ec38bbd9afed918667881190745 (from https://pypi.org/simple/biocode/), version: 0.1.4 2021-07-12T10:14:54,450 Found link https://files.pythonhosted.org/packages/27/c6/cdb7baa2821259f68c059a9e7385d613b817d90c00c8e727df7d3da23d2e/biocode-0.1.5.tar.gz#sha256=a9d3a7c9214b2625e44a0299c132e349279cd6b355c4ad30992aacdb27f123d6 (from https://pypi.org/simple/biocode/), version: 0.1.5 2021-07-12T10:14:54,451 Found link https://files.pythonhosted.org/packages/5d/ff/bda52fd80d3696809f96b27e1df816809c610a91587199fbb5611a82ff48/biocode-0.2.0.tar.gz#sha256=9b0e58ba93cb841d9f214c010d46e40c2c09a941a3f43874b58564abe357ccfd (from https://pypi.org/simple/biocode/), version: 0.2.0 2021-07-12T10:14:54,451 Found link https://files.pythonhosted.org/packages/4b/d4/61d22deda78a8fb9b998ac1a7e7fee95eb3e84adcb26ab1705fda8235d31/biocode-0.3.0.tar.gz#sha256=8d210b1a7ae16d60964df9a92d0e92eda846e7fca2c01f6add5105d6f26691d3 (from https://pypi.org/simple/biocode/), version: 0.3.0 2021-07-12T10:14:54,451 Found link https://files.pythonhosted.org/packages/9e/04/4a879cb84c7d4d8a11b9812e25668e5f1d4ef5e3cea429f7cc8202a0021b/biocode-0.3.1.tar.gz#sha256=aac38e473e1f4712d85db957f8b92caf980522c748d438ca3ef2597cab586f20 (from https://pypi.org/simple/biocode/), version: 0.3.1 2021-07-12T10:14:54,452 Found link https://files.pythonhosted.org/packages/72/af/9de76d7a8ae1cc6912488e33e53df8145aac259d36ddd42fc3dc803ea473/biocode-0.4.0.tar.gz#sha256=7e5c9d20368f8a7fdd8446e56b9d325a2e7d890cd5c76cc1f90740665a3886d8 (from https://pypi.org/simple/biocode/), version: 0.4.0 2021-07-12T10:14:54,452 Found link https://files.pythonhosted.org/packages/c7/93/31d3a353be167da9500e2bdff93451dba1a6a134e425767d426e297a0853/biocode-0.4.1.tar.gz#sha256=e5e17c522d8372246038b2d2b77ce112a38c9eb2770f3fba28bcfda4e2bfed10 (from https://pypi.org/simple/biocode/), version: 0.4.1 2021-07-12T10:14:54,452 Found link https://files.pythonhosted.org/packages/7a/24/cae23280630c49008e96590c77494485e47bbcf488f5c4b4e03ecc7b1e29/biocode-0.4.2.tar.gz#sha256=d49e59cc384507d62a7e379c6f21a6598262677ca9d50f98e47503e495a901ea (from https://pypi.org/simple/biocode/), version: 0.4.2 2021-07-12T10:14:54,453 Found link https://files.pythonhosted.org/packages/7f/5a/0d11038818cc78cee863d20da8a16a9907c20be8bfa8334ebabec4cb37e4/biocode-0.4.4.tar.gz#sha256=078dc61603ae5fe6944f271f8625f06779c884b9428154315c1cbc1dcd7c606f (from https://pypi.org/simple/biocode/), version: 0.4.4 2021-07-12T10:14:54,453 Found link https://files.pythonhosted.org/packages/43/8e/107a8d911b7af9db94a561f6740801f62b69a60cb8857fc6642268f0d99d/biocode-0.4.5.tar.gz#sha256=bca0bac61eb6ba3da8df7d2826edd314e3351df73b272df4db17e83b3881d5ea (from https://pypi.org/simple/biocode/), version: 0.4.5 2021-07-12T10:14:54,453 Found link https://files.pythonhosted.org/packages/02/e7/dc62a42fcfcb2288f397789f6bc83fd40a815d495edba4fa79e14759935c/biocode-0.4.7.tar.gz#sha256=8cfa6c8edbd1a65b03178d12f1941cb159d210a534447226846cc8ae4ad47148 (from https://pypi.org/simple/biocode/), version: 0.4.7 2021-07-12T10:14:54,453 Found link https://files.pythonhosted.org/packages/f2/fc/483f6dad337423c04dc8a1b2756c3e5326e9381648e5560eb602a4f83413/biocode-0.5.0.tar.gz#sha256=a96f0e2c3bde3e42f82590de9ce1be0e8782b50c9a58296bc3e872161fb3a3a3 (from https://pypi.org/simple/biocode/), version: 0.5.0 2021-07-12T10:14:54,454 Found link https://files.pythonhosted.org/packages/5c/b7/035e01334320dd66ac8c65be4baa910e8cb16215c563d7b65bfdfd5b56d6/biocode-0.5.1.tar.gz#sha256=ca80071c7e495380a875714ac7cf975dc20389ab8e36f72971a59f6e5a5ac83e (from https://pypi.org/simple/biocode/), version: 0.5.1 2021-07-12T10:14:54,454 Found link https://files.pythonhosted.org/packages/95/f7/e7ac262a9e90ac52d889c0a832aa8276b95fb6c23d0c65bf32fc2ccc1c7a/biocode-0.5.2.tar.gz#sha256=53cfdf987543f82bca9ccd37fa6aade4f257601f18d79b9ebd4dd924d55e5d01 (from https://pypi.org/simple/biocode/), version: 0.5.2 2021-07-12T10:14:54,454 Found link https://files.pythonhosted.org/packages/3b/2d/43287226a16b06ecdf7ed706752de718042382513bf2a3a5b0c9d2a41222/biocode-0.5.3.tar.gz#sha256=446811c773f4a93604591130ab64cdf30ddb26810a468b68588876985cc44003 (from https://pypi.org/simple/biocode/), version: 0.5.3 2021-07-12T10:14:54,455 Found link https://files.pythonhosted.org/packages/b3/e7/e8b3bd627d57954933c9c5a79bbdf28ad93073cc0792c61f71e3777f44d8/biocode-0.6.0.tar.gz#sha256=194619f6945592ac8795cebb80d2734b5e30ad85dc4cc5f5cf3365f9fc13491e (from https://pypi.org/simple/biocode/), version: 0.6.0 2021-07-12T10:14:54,455 Found link https://files.pythonhosted.org/packages/dd/d7/73e00082816c193207ea58420b38ac0a4041d345b8617f0d15501367c080/biocode-0.7.0.tar.gz#sha256=6f1f1ddb5e72687c18ae968414bb9c5b9003869b1bb5d8b69acb4f863bccffe8 (from https://pypi.org/simple/biocode/), version: 0.7.0 2021-07-12T10:14:54,455 Found link https://files.pythonhosted.org/packages/bb/7a/c073ca257a937286fec9e225190fa55c66a46132708e8dfa13569ef0cc37/biocode-0.7.1.tar.gz#sha256=98583da45aa2fb3258f676fd02cbd421b5dbf38ecac9f062a44157222671bb8b (from https://pypi.org/simple/biocode/), version: 0.7.1 2021-07-12T10:14:54,455 Found link https://files.pythonhosted.org/packages/a3/b5/0a5b44de28177113d5bbc0a8b510ea6e9acf82184b1e1ad5303357d1caa5/biocode-0.8.0.tar.gz#sha256=9ac96ea8d68d3770c815e91201080ef13485e550f42f2c955fb21df57384952b (from https://pypi.org/simple/biocode/), version: 0.8.0 2021-07-12T10:14:54,456 Found link https://files.pythonhosted.org/packages/ac/58/b16f07e13b99403a0069b7782dc963882f634b6863d6e4bba85d327bd634/biocode-0.9.0.tar.gz#sha256=3e8ef89dc0a699ed4f735563009a5e329c8101c60e23c21135ebb6ef9b44d3b8 (from https://pypi.org/simple/biocode/), version: 0.9.0 2021-07-12T10:14:54,456 Found link https://files.pythonhosted.org/packages/60/4d/1ede29387210a62ff0c6ccbb1c467e94890fb1a5802a2a3b3d37df3997cb/biocode-0.10.0.tar.gz#sha256=ab48e0ea92f52c7fe48c6c947d4d5aa43437f16cd42a804546c71ef0e5ba2265 (from https://pypi.org/simple/biocode/), version: 0.10.0 2021-07-12T10:14:54,456 Skipping link: not a file: https://pypi.org/simple/biocode/ 2021-07-12T10:14:54,478 Given no hashes to check 1 links for project 'biocode': discarding no candidates 2021-07-12T10:14:54,500 Collecting biocode==0.2.0 2021-07-12T10:14:54,502 Created temporary directory: /tmp/pip-unpack-5s3eg0xu 2021-07-12T10:14:54,833 Downloading biocode-0.2.0.tar.gz (141 kB) 2021-07-12T10:14:55,111 Added biocode==0.2.0 from https://files.pythonhosted.org/packages/5d/ff/bda52fd80d3696809f96b27e1df816809c610a91587199fbb5611a82ff48/biocode-0.2.0.tar.gz#sha256=9b0e58ba93cb841d9f214c010d46e40c2c09a941a3f43874b58564abe357ccfd to build tracker '/tmp/pip-req-tracker-esrg7q9z' 2021-07-12T10:14:55,112 Running setup.py (path:/tmp/pip-wheel-7yn19oxt/biocode_5274e760966649cea1af8cbccc2dcac5/setup.py) egg_info for package biocode 2021-07-12T10:14:55,113 Created temporary directory: /tmp/pip-pip-egg-info-0uob3qy0 2021-07-12T10:14:55,113 Running command python setup.py egg_info 2021-07-12T10:14:56,086 /tmp/pip-wheel-7yn19oxt/biocode_5274e760966649cea1af8cbccc2dcac5/setup.py:6: DeprecationWarning: Due to possible ambiguity, 'convert()' is deprecated. Use 'convert_file()' or 'convert_text()'. 2021-07-12T10:14:56,086 read_md = lambda f: convert(f, 'rst', 'md') 2021-07-12T10:14:56,325 /usr/lib/python3.9/distutils/dist.py:274: UserWarning: Unknown distribution option: 'long' 2021-07-12T10:14:56,326 warnings.warn(msg) 2021-07-12T10:14:56,436 running egg_info 2021-07-12T10:14:56,438 creating /tmp/pip-pip-egg-info-0uob3qy0/biocode.egg-info 2021-07-12T10:14:56,440 writing /tmp/pip-pip-egg-info-0uob3qy0/biocode.egg-info/PKG-INFO 2021-07-12T10:14:56,442 writing dependency_links to /tmp/pip-pip-egg-info-0uob3qy0/biocode.egg-info/dependency_links.txt 2021-07-12T10:14:56,444 writing requirements to /tmp/pip-pip-egg-info-0uob3qy0/biocode.egg-info/requires.txt 2021-07-12T10:14:56,445 writing top-level names to /tmp/pip-pip-egg-info-0uob3qy0/biocode.egg-info/top_level.txt 2021-07-12T10:14:56,447 writing manifest file '/tmp/pip-pip-egg-info-0uob3qy0/biocode.egg-info/SOURCES.txt' 2021-07-12T10:14:56,602 reading manifest file '/tmp/pip-pip-egg-info-0uob3qy0/biocode.egg-info/SOURCES.txt' 2021-07-12T10:14:56,603 reading manifest template 'MANIFEST.in' 2021-07-12T10:14:56,604 warning: no files found matching 'biocode/README.rst' 2021-07-12T10:14:56,605 adding license file 'LICENSE' 2021-07-12T10:14:56,610 writing manifest file '/tmp/pip-pip-egg-info-0uob3qy0/biocode.egg-info/SOURCES.txt' 2021-07-12T10:14:56,684 Source in /tmp/pip-wheel-7yn19oxt/biocode_5274e760966649cea1af8cbccc2dcac5 has version 0.2.0, which satisfies requirement biocode==0.2.0 from https://files.pythonhosted.org/packages/5d/ff/bda52fd80d3696809f96b27e1df816809c610a91587199fbb5611a82ff48/biocode-0.2.0.tar.gz#sha256=9b0e58ba93cb841d9f214c010d46e40c2c09a941a3f43874b58564abe357ccfd 2021-07-12T10:14:56,685 Removed biocode==0.2.0 from https://files.pythonhosted.org/packages/5d/ff/bda52fd80d3696809f96b27e1df816809c610a91587199fbb5611a82ff48/biocode-0.2.0.tar.gz#sha256=9b0e58ba93cb841d9f214c010d46e40c2c09a941a3f43874b58564abe357ccfd from build tracker '/tmp/pip-req-tracker-esrg7q9z' 2021-07-12T10:14:56,689 Created temporary directory: /tmp/pip-unpack-yhxwj5w6 2021-07-12T10:14:56,690 Building wheels for collected packages: biocode 2021-07-12T10:14:56,694 Created temporary directory: /tmp/pip-wheel-i3zu_y40 2021-07-12T10:14:56,694 Building wheel for biocode (setup.py): started 2021-07-12T10:14:56,694 Destination directory: /tmp/pip-wheel-i3zu_y40 2021-07-12T10:14:56,695 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-7yn19oxt/biocode_5274e760966649cea1af8cbccc2dcac5/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-7yn19oxt/biocode_5274e760966649cea1af8cbccc2dcac5/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d /tmp/pip-wheel-i3zu_y40 2021-07-12T10:14:57,661 /tmp/pip-wheel-7yn19oxt/biocode_5274e760966649cea1af8cbccc2dcac5/setup.py:6: DeprecationWarning: Due to possible ambiguity, 'convert()' is deprecated. Use 'convert_file()' or 'convert_text()'. 2021-07-12T10:14:57,661 read_md = lambda f: convert(f, 'rst', 'md') 2021-07-12T10:14:57,893 /usr/lib/python3.9/distutils/dist.py:274: UserWarning: Unknown distribution option: 'long' 2021-07-12T10:14:57,893 warnings.warn(msg) 2021-07-12T10:14:58,020 running bdist_wheel 2021-07-12T10:14:58,183 running build 2021-07-12T10:14:58,183 running build_py 2021-07-12T10:14:58,324 creating build 2021-07-12T10:14:58,324 creating build/lib 2021-07-12T10:14:58,325 creating build/lib/biocode 2021-07-12T10:14:58,326 copying biocode/gff.py -> build/lib/biocode 2021-07-12T10:14:58,328 copying biocode/things.py -> build/lib/biocode 2021-07-12T10:14:58,331 copying biocode/annotation.py -> build/lib/biocode 2021-07-12T10:14:58,334 copying biocode/__init__.py -> build/lib/biocode 2021-07-12T10:14:58,335 copying biocode/genbank.py -> build/lib/biocode 2021-07-12T10:14:58,337 copying biocode/tbl.py -> build/lib/biocode 2021-07-12T10:14:58,339 copying biocode/utils.py -> build/lib/biocode 2021-07-12T10:14:58,341 running egg_info 2021-07-12T10:14:58,357 writing biocode.egg-info/PKG-INFO 2021-07-12T10:14:58,358 writing dependency_links to biocode.egg-info/dependency_links.txt 2021-07-12T10:14:58,360 writing requirements to biocode.egg-info/requires.txt 2021-07-12T10:14:58,361 writing top-level names to biocode.egg-info/top_level.txt 2021-07-12T10:14:58,379 reading manifest file 'biocode.egg-info/SOURCES.txt' 2021-07-12T10:14:58,382 reading manifest template 'MANIFEST.in' 2021-07-12T10:14:58,383 warning: no files found matching 'biocode/README.rst' 2021-07-12T10:14:58,384 adding license file 'LICENSE' 2021-07-12T10:14:58,392 writing manifest file 'biocode.egg-info/SOURCES.txt' 2021-07-12T10:14:58,396 creating build/lib/biocode/data 2021-07-12T10:14:58,397 copying biocode/data/__init__.py -> build/lib/biocode/data 2021-07-12T10:14:58,399 copying biocode/data/genbank_flat_file_header.template -> build/lib/biocode/data 2021-07-12T10:14:58,402 copying biocode/data/rsem_html_table.template -> build/lib/biocode/data 2021-07-12T10:14:58,405 running build_scripts 2021-07-12T10:14:58,406 creating build/scripts-3.9 2021-07-12T10:14:58,406 copying and adjusting bin/convert_blast_btab_to_gff3.py -> build/scripts-3.9 2021-07-12T10:14:58,408 copying and adjusting bin/fasta_base_content.py -> build/scripts-3.9 2021-07-12T10:14:58,410 copying and adjusting bin/subsample_fasta.py -> build/scripts-3.9 2021-07-12T10:14:58,411 copying and adjusting bin/convert_glimmerHMM_gff_to_gff3.py -> build/scripts-3.9 2021-07-12T10:14:58,413 copying and adjusting bin/add_gff3_locus_tags.py -> build/scripts-3.9 2021-07-12T10:14:58,415 copying and adjusting bin/convert_gff3_to_gene_association_format.py -> build/scripts-3.9 2021-07-12T10:14:58,417 copying and adjusting bin/detect_inverted_repeats.py -> build/scripts-3.9 2021-07-12T10:14:58,419 copying and adjusting bin/correct_gff3_CDS_phase_column.py -> build/scripts-3.9 2021-07-12T10:14:58,421 copying and adjusting bin/remove_duplicate_features.py -> build/scripts-3.9 2021-07-12T10:14:58,422 copying and adjusting bin/merge_masked_fasta_files.py -> build/scripts-3.9 2021-07-12T10:14:58,423 copying and adjusting bin/create_taxonomic_profile_from_blast.py -> build/scripts-3.9 2021-07-12T10:14:58,426 copying and adjusting bin/check_for_embedded_fasta_headers.py -> build/scripts-3.9 2021-07-12T10:14:58,427 copying and adjusting bin/split_isoforms_into_individual_genes.py -> build/scripts-3.9 2021-07-12T10:14:58,429 copying and adjusting bin/filter_fastq_by_N_content.py -> build/scripts-3.9 2021-07-12T10:14:58,431 copying and adjusting bin/select_training_and_evaluation_transcripts.py -> build/scripts-3.9 2021-07-12T10:14:58,433 copying and adjusting bin/convert_cegma_gff_to_gff3.py -> build/scripts-3.9 2021-07-12T10:14:58,435 copying and adjusting bin/biothings_coordinate_comparisons.py -> build/scripts-3.9 2021-07-12T10:14:58,437 copying and adjusting bin/validate_fasta.py -> build/scripts-3.9 2021-07-12T10:14:58,439 copying and adjusting bin/validate_feature_boundaries_on_molecules.py -> build/scripts-3.9 2021-07-12T10:14:58,441 copying and adjusting bin/report_coverage_gaps.py -> build/scripts-3.9 2021-07-12T10:14:58,443 copying and adjusting bin/mark_partial_genes.py -> build/scripts-3.9 2021-07-12T10:14:58,445 copying and adjusting bin/convert_aat_btab_to_gff3.py -> build/scripts-3.9 2021-07-12T10:14:58,447 copying and adjusting bin/calculate_query_coverage_by_blast.py -> build/scripts-3.9 2021-07-12T10:14:58,449 copying and adjusting bin/convert_gff3_to_ncbi_tbl.py -> build/scripts-3.9 2021-07-12T10:14:58,451 copying and adjusting bin/filter_gff3_by_id_list.py -> build/scripts-3.9 2021-07-12T10:14:58,452 copying and adjusting bin/split_fasta_into_even_files.py -> build/scripts-3.9 2021-07-12T10:14:58,454 copying and adjusting bin/replace_gff_type_column_value.py -> build/scripts-3.9 2021-07-12T10:14:58,455 copying and adjusting bin/merge_bam_files.py -> build/scripts-3.9 2021-07-12T10:14:58,457 copying and adjusting bin/prepend_to_fasta_header.py -> build/scripts-3.9 2021-07-12T10:14:58,458 copying and adjusting bin/check_gff_for_internal_stops.py -> build/scripts-3.9 2021-07-12T10:14:58,460 copying and adjusting bin/remove_orphaned_features.py -> build/scripts-3.9 2021-07-12T10:14:58,462 copying and adjusting bin/convert_gff3_to_gbk.py -> build/scripts-3.9 2021-07-12T10:14:58,464 copying and adjusting bin/report_or_replace_nonstandard_residues.py -> build/scripts-3.9 2021-07-12T10:14:58,466 copying and adjusting bin/make_go_slim_index.py -> build/scripts-3.9 2021-07-12T10:14:58,468 copying and adjusting bin/extend_genes_to_stops.py -> build/scripts-3.9 2021-07-12T10:14:58,470 copying and adjusting bin/remove_masked_gene_models.py -> build/scripts-3.9 2021-07-12T10:14:58,472 copying and adjusting bin/randomly_subsample_fastq.py -> build/scripts-3.9 2021-07-12T10:14:58,474 copying and adjusting bin/fasta_size_distribution_plot.py -> build/scripts-3.9 2021-07-12T10:14:58,476 copying and adjusting bin/remove_duplicate_sequences.py -> build/scripts-3.9 2021-07-12T10:14:58,477 copying and adjusting bin/convert_metagenemark_gff_to_gff3.py -> build/scripts-3.9 2021-07-12T10:14:58,479 copying and adjusting bin/filter_fasta_by_header_regex.py -> build/scripts-3.9 2021-07-12T10:14:58,481 copying and adjusting bin/split_molecules_on_gaps.py -> build/scripts-3.9 2021-07-12T10:14:58,483 copying and adjusting bin/convert_fasta_contigs_to_gff3.py -> build/scripts-3.9 2021-07-12T10:14:58,484 copying and adjusting bin/report_gff_intron_and_intergenic_stats.py -> build/scripts-3.9 2021-07-12T10:14:58,487 copying and adjusting bin/append_to_column_9_value.py -> build/scripts-3.9 2021-07-12T10:14:58,488 copying and adjusting bin/split_interleaved_sequence_file.py -> build/scripts-3.9 2021-07-12T10:14:58,491 copying and adjusting bin/filter_fasta_by_type.py -> build/scripts-3.9 2021-07-12T10:14:58,492 copying and adjusting bin/convert_augustus_to_gff3.py -> build/scripts-3.9 2021-07-12T10:14:58,495 copying and adjusting bin/uniprot_sprot_to_sqlite3.py -> build/scripts-3.9 2021-07-12T10:14:58,497 copying and adjusting bin/hmmlib_to_sqlite3.py -> build/scripts-3.9 2021-07-12T10:14:58,500 copying and adjusting bin/update_selected_column9_values.py -> build/scripts-3.9 2021-07-12T10:14:58,502 copying and adjusting bin/get_mpilup_from_id_list.py -> build/scripts-3.9 2021-07-12T10:14:58,503 copying and adjusting bin/convert_prodigal_to_gff3.py -> build/scripts-3.9 2021-07-12T10:14:58,505 copying and adjusting bin/append_to_fastq_read_header.py -> build/scripts-3.9 2021-07-12T10:14:58,507 copying and adjusting bin/convert_genbank_to_gff3.py -> build/scripts-3.9 2021-07-12T10:14:58,509 copying and adjusting bin/compare_gene_structures.py -> build/scripts-3.9 2021-07-12T10:14:58,512 copying and adjusting bin/uniref_to_sqlite3.py -> build/scripts-3.9 2021-07-12T10:14:58,515 copying and adjusting bin/extract_fasta_regions.py -> build/scripts-3.9 2021-07-12T10:14:58,516 copying and adjusting bin/reverse_misordered_cds_coords.py -> build/scripts-3.9 2021-07-12T10:14:58,518 copying and adjusting bin/convert_scipio_gff_to_gff3.py -> build/scripts-3.9 2021-07-12T10:14:58,520 copying and adjusting bin/interleave_fasta.py -> build/scripts-3.9 2021-07-12T10:14:58,521 copying and adjusting bin/report_basic_gff_model_agreement.py -> build/scripts-3.9 2021-07-12T10:14:58,523 copying and adjusting bin/make_cufflinks_ids_unique.py -> build/scripts-3.9 2021-07-12T10:14:58,524 copying and adjusting bin/fastq_simple_stats.py -> build/scripts-3.9 2021-07-12T10:14:58,526 copying and adjusting bin/eggnog_to_sqlite3.py -> build/scripts-3.9 2021-07-12T10:14:58,528 copying and adjusting bin/create_taxonomy_db.py -> build/scripts-3.9 2021-07-12T10:14:58,530 copying and adjusting bin/append_to_fasta_header.py -> build/scripts-3.9 2021-07-12T10:14:58,532 copying and adjusting bin/tigrfam_info_to_sqlite3.py -> build/scripts-3.9 2021-07-12T10:14:58,534 copying and adjusting bin/reformat_fasta_residue_lengths.py -> build/scripts-3.9 2021-07-12T10:14:58,536 copying and adjusting bin/replace_homopolymeric_repeats_with_Ns.py -> build/scripts-3.9 2021-07-12T10:14:58,538 copying and adjusting bin/create_rsem_html_table.py -> build/scripts-3.9 2021-07-12T10:14:58,539 copying and adjusting bin/convert_cufflinks_gtf_to_gff3.py -> build/scripts-3.9 2021-07-12T10:14:58,541 copying and adjusting bin/reorient_sequences_by_id.py -> build/scripts-3.9 2021-07-12T10:14:58,543 copying and adjusting bin/convert_fastq_to_fasta.py -> build/scripts-3.9 2021-07-12T10:14:58,545 copying and adjusting bin/write_fasta_from_gff.py -> build/scripts-3.9 2021-07-12T10:14:58,547 copying and adjusting bin/convert_pasa_gff_to_models.py -> build/scripts-3.9 2021-07-12T10:14:58,549 copying and adjusting bin/set_source_column.py -> build/scripts-3.9 2021-07-12T10:14:58,550 copying and adjusting bin/interleave_fastq.py -> build/scripts-3.9 2021-07-12T10:14:58,552 copying and adjusting bin/report_gff3_statistics.py -> build/scripts-3.9 2021-07-12T10:14:58,554 copying and adjusting bin/merge_fasta_files_and_uniquify_ids.py -> build/scripts-3.9 2021-07-12T10:14:58,555 changing mode of build/scripts-3.9/convert_blast_btab_to_gff3.py from 644 to 755 2021-07-12T10:14:58,555 changing mode of build/scripts-3.9/fasta_base_content.py from 644 to 755 2021-07-12T10:14:58,556 changing mode of build/scripts-3.9/subsample_fasta.py from 644 to 755 2021-07-12T10:14:58,556 changing mode of build/scripts-3.9/convert_glimmerHMM_gff_to_gff3.py from 644 to 755 2021-07-12T10:14:58,556 changing mode of build/scripts-3.9/add_gff3_locus_tags.py from 644 to 755 2021-07-12T10:14:58,557 changing mode of build/scripts-3.9/convert_gff3_to_gene_association_format.py from 644 to 755 2021-07-12T10:14:58,557 changing mode of build/scripts-3.9/detect_inverted_repeats.py from 644 to 755 2021-07-12T10:14:58,557 changing mode of build/scripts-3.9/correct_gff3_CDS_phase_column.py from 644 to 755 2021-07-12T10:14:58,557 changing mode of build/scripts-3.9/remove_duplicate_features.py from 644 to 755 2021-07-12T10:14:58,558 changing mode of build/scripts-3.9/merge_masked_fasta_files.py from 644 to 755 2021-07-12T10:14:58,558 changing mode of build/scripts-3.9/create_taxonomic_profile_from_blast.py from 644 to 755 2021-07-12T10:14:58,558 changing mode of build/scripts-3.9/check_for_embedded_fasta_headers.py from 644 to 755 2021-07-12T10:14:58,559 changing mode of build/scripts-3.9/split_isoforms_into_individual_genes.py from 644 to 755 2021-07-12T10:14:58,559 changing mode of build/scripts-3.9/filter_fastq_by_N_content.py from 644 to 755 2021-07-12T10:14:58,559 changing mode of build/scripts-3.9/select_training_and_evaluation_transcripts.py from 644 to 755 2021-07-12T10:14:58,560 changing mode of build/scripts-3.9/convert_cegma_gff_to_gff3.py from 644 to 755 2021-07-12T10:14:58,560 changing mode of build/scripts-3.9/biothings_coordinate_comparisons.py from 644 to 755 2021-07-12T10:14:58,560 changing mode of build/scripts-3.9/validate_fasta.py from 644 to 755 2021-07-12T10:14:58,560 changing mode of build/scripts-3.9/validate_feature_boundaries_on_molecules.py from 644 to 755 2021-07-12T10:14:58,561 changing mode of build/scripts-3.9/report_coverage_gaps.py from 644 to 755 2021-07-12T10:14:58,561 changing mode of build/scripts-3.9/mark_partial_genes.py from 644 to 755 2021-07-12T10:14:58,561 changing mode of build/scripts-3.9/convert_aat_btab_to_gff3.py from 644 to 755 2021-07-12T10:14:58,562 changing mode of build/scripts-3.9/calculate_query_coverage_by_blast.py from 644 to 755 2021-07-12T10:14:58,562 changing mode of build/scripts-3.9/convert_gff3_to_ncbi_tbl.py from 644 to 755 2021-07-12T10:14:58,562 changing mode of build/scripts-3.9/filter_gff3_by_id_list.py from 644 to 755 2021-07-12T10:14:58,562 changing mode of build/scripts-3.9/split_fasta_into_even_files.py from 644 to 755 2021-07-12T10:14:58,563 changing mode of build/scripts-3.9/replace_gff_type_column_value.py from 644 to 755 2021-07-12T10:14:58,563 changing mode of build/scripts-3.9/merge_bam_files.py from 644 to 755 2021-07-12T10:14:58,563 changing mode of build/scripts-3.9/prepend_to_fasta_header.py from 644 to 755 2021-07-12T10:14:58,564 changing mode of build/scripts-3.9/check_gff_for_internal_stops.py from 644 to 755 2021-07-12T10:14:58,564 changing mode of build/scripts-3.9/remove_orphaned_features.py from 644 to 755 2021-07-12T10:14:58,564 changing mode of build/scripts-3.9/convert_gff3_to_gbk.py from 644 to 755 2021-07-12T10:14:58,564 changing mode of build/scripts-3.9/report_or_replace_nonstandard_residues.py from 644 to 755 2021-07-12T10:14:58,565 changing mode of build/scripts-3.9/make_go_slim_index.py from 644 to 755 2021-07-12T10:14:58,565 changing mode of build/scripts-3.9/extend_genes_to_stops.py from 644 to 755 2021-07-12T10:14:58,565 changing mode of build/scripts-3.9/remove_masked_gene_models.py from 644 to 755 2021-07-12T10:14:58,566 changing mode of build/scripts-3.9/randomly_subsample_fastq.py from 644 to 755 2021-07-12T10:14:58,566 changing mode of build/scripts-3.9/fasta_size_distribution_plot.py from 644 to 755 2021-07-12T10:14:58,566 changing mode of build/scripts-3.9/remove_duplicate_sequences.py from 644 to 755 2021-07-12T10:14:58,566 changing mode of build/scripts-3.9/convert_metagenemark_gff_to_gff3.py from 644 to 755 2021-07-12T10:14:58,567 changing mode of build/scripts-3.9/filter_fasta_by_header_regex.py from 644 to 755 2021-07-12T10:14:58,567 changing mode of build/scripts-3.9/split_molecules_on_gaps.py from 644 to 755 2021-07-12T10:14:58,567 changing mode of build/scripts-3.9/convert_fasta_contigs_to_gff3.py from 644 to 755 2021-07-12T10:14:58,567 changing mode of build/scripts-3.9/report_gff_intron_and_intergenic_stats.py from 644 to 755 2021-07-12T10:14:58,568 changing mode of build/scripts-3.9/append_to_column_9_value.py from 644 to 755 2021-07-12T10:14:58,568 changing mode of build/scripts-3.9/split_interleaved_sequence_file.py from 644 to 755 2021-07-12T10:14:58,568 changing mode of build/scripts-3.9/filter_fasta_by_type.py from 644 to 755 2021-07-12T10:14:58,569 changing mode of build/scripts-3.9/convert_augustus_to_gff3.py from 644 to 755 2021-07-12T10:14:58,569 changing mode of build/scripts-3.9/uniprot_sprot_to_sqlite3.py from 644 to 755 2021-07-12T10:14:58,569 changing mode of build/scripts-3.9/hmmlib_to_sqlite3.py from 644 to 755 2021-07-12T10:14:58,569 changing mode of build/scripts-3.9/update_selected_column9_values.py from 644 to 755 2021-07-12T10:14:58,570 changing mode of build/scripts-3.9/get_mpilup_from_id_list.py from 644 to 755 2021-07-12T10:14:58,570 changing mode of build/scripts-3.9/convert_prodigal_to_gff3.py from 644 to 755 2021-07-12T10:14:58,570 changing mode of build/scripts-3.9/append_to_fastq_read_header.py from 644 to 755 2021-07-12T10:14:58,571 changing mode of build/scripts-3.9/convert_genbank_to_gff3.py from 644 to 755 2021-07-12T10:14:58,571 changing mode of build/scripts-3.9/compare_gene_structures.py from 644 to 755 2021-07-12T10:14:58,571 changing mode of build/scripts-3.9/uniref_to_sqlite3.py from 644 to 755 2021-07-12T10:14:58,571 changing mode of build/scripts-3.9/extract_fasta_regions.py from 644 to 755 2021-07-12T10:14:58,572 changing mode of build/scripts-3.9/reverse_misordered_cds_coords.py from 644 to 755 2021-07-12T10:14:58,572 changing mode of build/scripts-3.9/convert_scipio_gff_to_gff3.py from 644 to 755 2021-07-12T10:14:58,572 changing mode of build/scripts-3.9/interleave_fasta.py from 644 to 755 2021-07-12T10:14:58,572 changing mode of build/scripts-3.9/report_basic_gff_model_agreement.py from 644 to 755 2021-07-12T10:14:58,573 changing mode of build/scripts-3.9/make_cufflinks_ids_unique.py from 644 to 755 2021-07-12T10:14:58,573 changing mode of build/scripts-3.9/fastq_simple_stats.py from 644 to 755 2021-07-12T10:14:58,573 changing mode of build/scripts-3.9/eggnog_to_sqlite3.py from 644 to 755 2021-07-12T10:14:58,573 changing mode of build/scripts-3.9/create_taxonomy_db.py from 644 to 755 2021-07-12T10:14:58,574 changing mode of build/scripts-3.9/append_to_fasta_header.py from 644 to 755 2021-07-12T10:14:58,574 changing mode of build/scripts-3.9/tigrfam_info_to_sqlite3.py from 644 to 755 2021-07-12T10:14:58,574 changing mode of build/scripts-3.9/reformat_fasta_residue_lengths.py from 644 to 755 2021-07-12T10:14:58,574 changing mode of build/scripts-3.9/replace_homopolymeric_repeats_with_Ns.py from 644 to 755 2021-07-12T10:14:58,575 changing mode of build/scripts-3.9/create_rsem_html_table.py from 644 to 755 2021-07-12T10:14:58,575 changing mode of build/scripts-3.9/convert_cufflinks_gtf_to_gff3.py from 644 to 755 2021-07-12T10:14:58,575 changing mode of build/scripts-3.9/reorient_sequences_by_id.py from 644 to 755 2021-07-12T10:14:58,575 changing mode of build/scripts-3.9/convert_fastq_to_fasta.py from 644 to 755 2021-07-12T10:14:58,576 changing mode of build/scripts-3.9/write_fasta_from_gff.py from 644 to 755 2021-07-12T10:14:58,576 changing mode of build/scripts-3.9/convert_pasa_gff_to_models.py from 644 to 755 2021-07-12T10:14:58,576 changing mode of build/scripts-3.9/set_source_column.py from 644 to 755 2021-07-12T10:14:58,576 changing mode of build/scripts-3.9/interleave_fastq.py from 644 to 755 2021-07-12T10:14:58,577 changing mode of build/scripts-3.9/report_gff3_statistics.py from 644 to 755 2021-07-12T10:14:58,577 changing mode of build/scripts-3.9/merge_fasta_files_and_uniquify_ids.py from 644 to 755 2021-07-12T10:14:58,583 installing to build/bdist.linux-armv7l/wheel 2021-07-12T10:14:58,584 running install 2021-07-12T10:14:58,584 running install_lib 2021-07-12T10:14:58,588 creating build/bdist.linux-armv7l 2021-07-12T10:14:58,589 creating build/bdist.linux-armv7l/wheel 2021-07-12T10:14:58,590 creating build/bdist.linux-armv7l/wheel/biocode 2021-07-12T10:14:58,591 copying build/lib/biocode/gff.py -> build/bdist.linux-armv7l/wheel/biocode 2021-07-12T10:14:58,595 copying build/lib/biocode/things.py -> build/bdist.linux-armv7l/wheel/biocode 2021-07-12T10:14:58,598 copying build/lib/biocode/annotation.py -> build/bdist.linux-armv7l/wheel/biocode 2021-07-12T10:14:58,601 copying build/lib/biocode/__init__.py -> build/bdist.linux-armv7l/wheel/biocode 2021-07-12T10:14:58,602 copying build/lib/biocode/genbank.py -> build/bdist.linux-armv7l/wheel/biocode 2021-07-12T10:14:58,605 copying build/lib/biocode/tbl.py -> build/bdist.linux-armv7l/wheel/biocode 2021-07-12T10:14:58,607 copying build/lib/biocode/utils.py -> build/bdist.linux-armv7l/wheel/biocode 2021-07-12T10:14:58,611 creating build/bdist.linux-armv7l/wheel/biocode/data 2021-07-12T10:14:58,611 copying build/lib/biocode/data/rsem_html_table.template -> build/bdist.linux-armv7l/wheel/biocode/data 2021-07-12T10:14:58,614 copying build/lib/biocode/data/__init__.py -> build/bdist.linux-armv7l/wheel/biocode/data 2021-07-12T10:14:58,616 copying build/lib/biocode/data/genbank_flat_file_header.template -> build/bdist.linux-armv7l/wheel/biocode/data 2021-07-12T10:14:58,617 running install_egg_info 2021-07-12T10:14:58,627 Copying biocode.egg-info to build/bdist.linux-armv7l/wheel/biocode-0.2.0-py3.9.egg-info 2021-07-12T10:14:58,640 running install_scripts 2021-07-12T10:14:58,671 creating build/bdist.linux-armv7l/wheel/biocode-0.2.0.data 2021-07-12T10:14:58,671 creating build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,672 copying build/scripts-3.9/filter_fasta_by_type.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,674 copying build/scripts-3.9/report_coverage_gaps.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,676 copying build/scripts-3.9/convert_prodigal_to_gff3.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,678 copying build/scripts-3.9/interleave_fastq.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,680 copying build/scripts-3.9/eggnog_to_sqlite3.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,682 copying build/scripts-3.9/reformat_fasta_residue_lengths.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,684 copying build/scripts-3.9/filter_fastq_by_N_content.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,686 copying build/scripts-3.9/get_mpilup_from_id_list.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,688 copying build/scripts-3.9/convert_genbank_to_gff3.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,690 copying build/scripts-3.9/validate_feature_boundaries_on_molecules.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,692 copying build/scripts-3.9/convert_gff3_to_gbk.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,695 copying build/scripts-3.9/create_taxonomy_db.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,698 copying build/scripts-3.9/remove_duplicate_sequences.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,700 copying build/scripts-3.9/convert_metagenemark_gff_to_gff3.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,703 copying build/scripts-3.9/convert_augustus_to_gff3.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,706 copying build/scripts-3.9/create_rsem_html_table.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,708 copying build/scripts-3.9/compare_gene_structures.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,712 copying build/scripts-3.9/fasta_size_distribution_plot.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,716 copying build/scripts-3.9/convert_gff3_to_gene_association_format.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,719 copying build/scripts-3.9/tigrfam_info_to_sqlite3.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,722 copying build/scripts-3.9/biothings_coordinate_comparisons.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,724 copying build/scripts-3.9/set_source_column.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,726 copying build/scripts-3.9/remove_orphaned_features.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,728 copying build/scripts-3.9/replace_gff_type_column_value.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,731 copying build/scripts-3.9/remove_masked_gene_models.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,733 copying build/scripts-3.9/uniprot_sprot_to_sqlite3.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,735 copying build/scripts-3.9/append_to_fasta_header.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,737 copying build/scripts-3.9/split_isoforms_into_individual_genes.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,739 copying build/scripts-3.9/split_interleaved_sequence_file.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,741 copying build/scripts-3.9/filter_gff3_by_id_list.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,743 copying build/scripts-3.9/make_cufflinks_ids_unique.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,746 copying build/scripts-3.9/convert_fastq_to_fasta.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,748 copying build/scripts-3.9/report_gff_intron_and_intergenic_stats.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,750 copying build/scripts-3.9/merge_masked_fasta_files.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,753 copying build/scripts-3.9/reorient_sequences_by_id.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,755 copying build/scripts-3.9/convert_fasta_contigs_to_gff3.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,757 copying build/scripts-3.9/select_training_and_evaluation_transcripts.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,760 copying build/scripts-3.9/randomly_subsample_fastq.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,762 copying build/scripts-3.9/add_gff3_locus_tags.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,765 copying build/scripts-3.9/remove_duplicate_features.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,767 copying build/scripts-3.9/fastq_simple_stats.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,769 copying build/scripts-3.9/reverse_misordered_cds_coords.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,772 copying build/scripts-3.9/merge_fasta_files_and_uniquify_ids.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,774 copying build/scripts-3.9/detect_inverted_repeats.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,777 copying build/scripts-3.9/convert_scipio_gff_to_gff3.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,779 copying build/scripts-3.9/convert_blast_btab_to_gff3.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,782 copying build/scripts-3.9/check_gff_for_internal_stops.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,784 copying build/scripts-3.9/hmmlib_to_sqlite3.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,787 copying build/scripts-3.9/write_fasta_from_gff.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,790 copying build/scripts-3.9/convert_glimmerHMM_gff_to_gff3.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,792 copying build/scripts-3.9/validate_fasta.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,795 copying build/scripts-3.9/interleave_fasta.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,797 copying build/scripts-3.9/convert_cufflinks_gtf_to_gff3.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,800 copying build/scripts-3.9/replace_homopolymeric_repeats_with_Ns.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,803 copying build/scripts-3.9/prepend_to_fasta_header.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,805 copying build/scripts-3.9/calculate_query_coverage_by_blast.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,807 copying build/scripts-3.9/update_selected_column9_values.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,810 copying build/scripts-3.9/append_to_fastq_read_header.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,812 copying build/scripts-3.9/correct_gff3_CDS_phase_column.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,815 copying build/scripts-3.9/split_molecules_on_gaps.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,817 copying build/scripts-3.9/extract_fasta_regions.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,819 copying build/scripts-3.9/fasta_base_content.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,821 copying build/scripts-3.9/report_or_replace_nonstandard_residues.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,824 copying build/scripts-3.9/merge_bam_files.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,826 copying build/scripts-3.9/make_go_slim_index.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,828 copying build/scripts-3.9/convert_cegma_gff_to_gff3.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,831 copying build/scripts-3.9/mark_partial_genes.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,833 copying build/scripts-3.9/create_taxonomic_profile_from_blast.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,836 copying build/scripts-3.9/append_to_column_9_value.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,838 copying build/scripts-3.9/convert_gff3_to_ncbi_tbl.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,840 copying build/scripts-3.9/extend_genes_to_stops.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,843 copying build/scripts-3.9/report_gff3_statistics.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,846 copying build/scripts-3.9/report_basic_gff_model_agreement.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,848 copying build/scripts-3.9/split_fasta_into_even_files.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,850 copying build/scripts-3.9/convert_aat_btab_to_gff3.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,853 copying build/scripts-3.9/convert_pasa_gff_to_models.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,856 copying build/scripts-3.9/filter_fasta_by_header_regex.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,858 copying build/scripts-3.9/check_for_embedded_fasta_headers.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,860 copying build/scripts-3.9/subsample_fasta.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,863 copying build/scripts-3.9/uniref_to_sqlite3.py -> build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts 2021-07-12T10:14:58,865 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/filter_fasta_by_type.py to 755 2021-07-12T10:14:58,865 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/report_coverage_gaps.py to 755 2021-07-12T10:14:58,866 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/convert_prodigal_to_gff3.py to 755 2021-07-12T10:14:58,866 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/interleave_fastq.py to 755 2021-07-12T10:14:58,866 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/eggnog_to_sqlite3.py to 755 2021-07-12T10:14:58,867 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/reformat_fasta_residue_lengths.py to 755 2021-07-12T10:14:58,867 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/filter_fastq_by_N_content.py to 755 2021-07-12T10:14:58,867 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/get_mpilup_from_id_list.py to 755 2021-07-12T10:14:58,868 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/convert_genbank_to_gff3.py to 755 2021-07-12T10:14:58,868 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/validate_feature_boundaries_on_molecules.py to 755 2021-07-12T10:14:58,868 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/convert_gff3_to_gbk.py to 755 2021-07-12T10:14:58,868 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/create_taxonomy_db.py to 755 2021-07-12T10:14:58,869 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/remove_duplicate_sequences.py to 755 2021-07-12T10:14:58,869 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/convert_metagenemark_gff_to_gff3.py to 755 2021-07-12T10:14:58,869 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/convert_augustus_to_gff3.py to 755 2021-07-12T10:14:58,870 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/create_rsem_html_table.py to 755 2021-07-12T10:14:58,870 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/compare_gene_structures.py to 755 2021-07-12T10:14:58,870 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/fasta_size_distribution_plot.py to 755 2021-07-12T10:14:58,871 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/convert_gff3_to_gene_association_format.py to 755 2021-07-12T10:14:58,871 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/tigrfam_info_to_sqlite3.py to 755 2021-07-12T10:14:58,871 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/biothings_coordinate_comparisons.py to 755 2021-07-12T10:14:58,871 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/set_source_column.py to 755 2021-07-12T10:14:58,872 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/remove_orphaned_features.py to 755 2021-07-12T10:14:58,872 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/replace_gff_type_column_value.py to 755 2021-07-12T10:14:58,872 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/remove_masked_gene_models.py to 755 2021-07-12T10:14:58,873 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/uniprot_sprot_to_sqlite3.py to 755 2021-07-12T10:14:58,873 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/append_to_fasta_header.py to 755 2021-07-12T10:14:58,873 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/split_isoforms_into_individual_genes.py to 755 2021-07-12T10:14:58,874 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/split_interleaved_sequence_file.py to 755 2021-07-12T10:14:58,874 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/filter_gff3_by_id_list.py to 755 2021-07-12T10:14:58,874 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/make_cufflinks_ids_unique.py to 755 2021-07-12T10:14:58,874 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/convert_fastq_to_fasta.py to 755 2021-07-12T10:14:58,875 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/report_gff_intron_and_intergenic_stats.py to 755 2021-07-12T10:14:58,875 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/merge_masked_fasta_files.py to 755 2021-07-12T10:14:58,875 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/reorient_sequences_by_id.py to 755 2021-07-12T10:14:58,876 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/convert_fasta_contigs_to_gff3.py to 755 2021-07-12T10:14:58,876 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/select_training_and_evaluation_transcripts.py to 755 2021-07-12T10:14:58,876 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/randomly_subsample_fastq.py to 755 2021-07-12T10:14:58,876 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/add_gff3_locus_tags.py to 755 2021-07-12T10:14:58,877 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/remove_duplicate_features.py to 755 2021-07-12T10:14:58,877 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/fastq_simple_stats.py to 755 2021-07-12T10:14:58,877 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/reverse_misordered_cds_coords.py to 755 2021-07-12T10:14:58,877 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/merge_fasta_files_and_uniquify_ids.py to 755 2021-07-12T10:14:58,878 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/detect_inverted_repeats.py to 755 2021-07-12T10:14:58,878 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/convert_scipio_gff_to_gff3.py to 755 2021-07-12T10:14:58,878 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/convert_blast_btab_to_gff3.py to 755 2021-07-12T10:14:58,879 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/check_gff_for_internal_stops.py to 755 2021-07-12T10:14:58,879 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/hmmlib_to_sqlite3.py to 755 2021-07-12T10:14:58,879 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/write_fasta_from_gff.py to 755 2021-07-12T10:14:58,880 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/convert_glimmerHMM_gff_to_gff3.py to 755 2021-07-12T10:14:58,880 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/validate_fasta.py to 755 2021-07-12T10:14:58,880 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/interleave_fasta.py to 755 2021-07-12T10:14:58,880 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/convert_cufflinks_gtf_to_gff3.py to 755 2021-07-12T10:14:58,881 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/replace_homopolymeric_repeats_with_Ns.py to 755 2021-07-12T10:14:58,881 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/prepend_to_fasta_header.py to 755 2021-07-12T10:14:58,881 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/calculate_query_coverage_by_blast.py to 755 2021-07-12T10:14:58,882 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/update_selected_column9_values.py to 755 2021-07-12T10:14:58,882 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/append_to_fastq_read_header.py to 755 2021-07-12T10:14:58,882 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/correct_gff3_CDS_phase_column.py to 755 2021-07-12T10:14:58,883 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/split_molecules_on_gaps.py to 755 2021-07-12T10:14:58,883 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/extract_fasta_regions.py to 755 2021-07-12T10:14:58,883 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/fasta_base_content.py to 755 2021-07-12T10:14:58,883 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/report_or_replace_nonstandard_residues.py to 755 2021-07-12T10:14:58,884 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/merge_bam_files.py to 755 2021-07-12T10:14:58,884 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/make_go_slim_index.py to 755 2021-07-12T10:14:58,884 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/convert_cegma_gff_to_gff3.py to 755 2021-07-12T10:14:58,885 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/mark_partial_genes.py to 755 2021-07-12T10:14:58,885 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/create_taxonomic_profile_from_blast.py to 755 2021-07-12T10:14:58,885 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/append_to_column_9_value.py to 755 2021-07-12T10:14:58,885 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/convert_gff3_to_ncbi_tbl.py to 755 2021-07-12T10:14:58,886 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/extend_genes_to_stops.py to 755 2021-07-12T10:14:58,886 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/report_gff3_statistics.py to 755 2021-07-12T10:14:58,886 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/report_basic_gff_model_agreement.py to 755 2021-07-12T10:14:58,887 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/split_fasta_into_even_files.py to 755 2021-07-12T10:14:58,887 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/convert_aat_btab_to_gff3.py to 755 2021-07-12T10:14:58,887 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/convert_pasa_gff_to_models.py to 755 2021-07-12T10:14:58,887 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/filter_fasta_by_header_regex.py to 755 2021-07-12T10:14:58,888 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/check_for_embedded_fasta_headers.py to 755 2021-07-12T10:14:58,888 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/subsample_fasta.py to 755 2021-07-12T10:14:58,888 changing mode of build/bdist.linux-armv7l/wheel/biocode-0.2.0.data/scripts/uniref_to_sqlite3.py to 755 2021-07-12T10:14:58,908 adding license file "LICENSE" (matched pattern "LICEN[CS]E*") 2021-07-12T10:14:58,912 creating build/bdist.linux-armv7l/wheel/biocode-0.2.0.dist-info/WHEEL 2021-07-12T10:14:58,915 creating '/tmp/pip-wheel-i3zu_y40/biocode-0.2.0-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2021-07-12T10:14:58,917 adding 'biocode/__init__.py' 2021-07-12T10:14:58,919 adding 'biocode/annotation.py' 2021-07-12T10:14:58,922 adding 'biocode/genbank.py' 2021-07-12T10:14:58,926 adding 'biocode/gff.py' 2021-07-12T10:14:58,928 adding 'biocode/tbl.py' 2021-07-12T10:14:58,935 adding 'biocode/things.py' 2021-07-12T10:14:58,938 adding 'biocode/utils.py' 2021-07-12T10:14:58,940 adding 'biocode/data/__init__.py' 2021-07-12T10:14:58,941 adding 'biocode/data/genbank_flat_file_header.template' 2021-07-12T10:14:58,943 adding 'biocode/data/rsem_html_table.template' 2021-07-12T10:14:58,948 adding 'biocode-0.2.0.data/scripts/add_gff3_locus_tags.py' 2021-07-12T10:14:58,950 adding 'biocode-0.2.0.data/scripts/append_to_column_9_value.py' 2021-07-12T10:14:58,951 adding 'biocode-0.2.0.data/scripts/append_to_fasta_header.py' 2021-07-12T10:14:58,953 adding 'biocode-0.2.0.data/scripts/append_to_fastq_read_header.py' 2021-07-12T10:14:58,954 adding 'biocode-0.2.0.data/scripts/biothings_coordinate_comparisons.py' 2021-07-12T10:14:58,955 adding 'biocode-0.2.0.data/scripts/calculate_query_coverage_by_blast.py' 2021-07-12T10:14:58,957 adding 'biocode-0.2.0.data/scripts/check_for_embedded_fasta_headers.py' 2021-07-12T10:14:58,958 adding 'biocode-0.2.0.data/scripts/check_gff_for_internal_stops.py' 2021-07-12T10:14:58,961 adding 'biocode-0.2.0.data/scripts/compare_gene_structures.py' 2021-07-12T10:14:58,964 adding 'biocode-0.2.0.data/scripts/convert_aat_btab_to_gff3.py' 2021-07-12T10:14:58,966 adding 'biocode-0.2.0.data/scripts/convert_augustus_to_gff3.py' 2021-07-12T10:14:58,967 adding 'biocode-0.2.0.data/scripts/convert_blast_btab_to_gff3.py' 2021-07-12T10:14:58,969 adding 'biocode-0.2.0.data/scripts/convert_cegma_gff_to_gff3.py' 2021-07-12T10:14:58,971 adding 'biocode-0.2.0.data/scripts/convert_cufflinks_gtf_to_gff3.py' 2021-07-12T10:14:58,972 adding 'biocode-0.2.0.data/scripts/convert_fasta_contigs_to_gff3.py' 2021-07-12T10:14:58,973 adding 'biocode-0.2.0.data/scripts/convert_fastq_to_fasta.py' 2021-07-12T10:14:58,975 adding 'biocode-0.2.0.data/scripts/convert_genbank_to_gff3.py' 2021-07-12T10:14:58,977 adding 'biocode-0.2.0.data/scripts/convert_gff3_to_gbk.py' 2021-07-12T10:14:58,978 adding 'biocode-0.2.0.data/scripts/convert_gff3_to_gene_association_format.py' 2021-07-12T10:14:58,980 adding 'biocode-0.2.0.data/scripts/convert_gff3_to_ncbi_tbl.py' 2021-07-12T10:14:58,981 adding 'biocode-0.2.0.data/scripts/convert_glimmerHMM_gff_to_gff3.py' 2021-07-12T10:14:58,983 adding 'biocode-0.2.0.data/scripts/convert_metagenemark_gff_to_gff3.py' 2021-07-12T10:14:58,984 adding 'biocode-0.2.0.data/scripts/convert_pasa_gff_to_models.py' 2021-07-12T10:14:58,986 adding 'biocode-0.2.0.data/scripts/convert_prodigal_to_gff3.py' 2021-07-12T10:14:58,987 adding 'biocode-0.2.0.data/scripts/convert_scipio_gff_to_gff3.py' 2021-07-12T10:14:58,989 adding 'biocode-0.2.0.data/scripts/correct_gff3_CDS_phase_column.py' 2021-07-12T10:14:58,990 adding 'biocode-0.2.0.data/scripts/create_rsem_html_table.py' 2021-07-12T10:14:58,992 adding 'biocode-0.2.0.data/scripts/create_taxonomic_profile_from_blast.py' 2021-07-12T10:14:58,994 adding 'biocode-0.2.0.data/scripts/create_taxonomy_db.py' 2021-07-12T10:14:58,996 adding 'biocode-0.2.0.data/scripts/detect_inverted_repeats.py' 2021-07-12T10:14:58,997 adding 'biocode-0.2.0.data/scripts/eggnog_to_sqlite3.py' 2021-07-12T10:14:58,999 adding 'biocode-0.2.0.data/scripts/extend_genes_to_stops.py' 2021-07-12T10:14:59,000 adding 'biocode-0.2.0.data/scripts/extract_fasta_regions.py' 2021-07-12T10:14:59,001 adding 'biocode-0.2.0.data/scripts/fasta_base_content.py' 2021-07-12T10:14:59,003 adding 'biocode-0.2.0.data/scripts/fasta_size_distribution_plot.py' 2021-07-12T10:14:59,004 adding 'biocode-0.2.0.data/scripts/fastq_simple_stats.py' 2021-07-12T10:14:59,005 adding 'biocode-0.2.0.data/scripts/filter_fasta_by_header_regex.py' 2021-07-12T10:14:59,007 adding 'biocode-0.2.0.data/scripts/filter_fasta_by_type.py' 2021-07-12T10:14:59,008 adding 'biocode-0.2.0.data/scripts/filter_fastq_by_N_content.py' 2021-07-12T10:14:59,010 adding 'biocode-0.2.0.data/scripts/filter_gff3_by_id_list.py' 2021-07-12T10:14:59,011 adding 'biocode-0.2.0.data/scripts/get_mpilup_from_id_list.py' 2021-07-12T10:14:59,013 adding 'biocode-0.2.0.data/scripts/hmmlib_to_sqlite3.py' 2021-07-12T10:14:59,015 adding 'biocode-0.2.0.data/scripts/interleave_fasta.py' 2021-07-12T10:14:59,016 adding 'biocode-0.2.0.data/scripts/interleave_fastq.py' 2021-07-12T10:14:59,017 adding 'biocode-0.2.0.data/scripts/make_cufflinks_ids_unique.py' 2021-07-12T10:14:59,019 adding 'biocode-0.2.0.data/scripts/make_go_slim_index.py' 2021-07-12T10:14:59,020 adding 'biocode-0.2.0.data/scripts/mark_partial_genes.py' 2021-07-12T10:14:59,022 adding 'biocode-0.2.0.data/scripts/merge_bam_files.py' 2021-07-12T10:14:59,023 adding 'biocode-0.2.0.data/scripts/merge_fasta_files_and_uniquify_ids.py' 2021-07-12T10:14:59,024 adding 'biocode-0.2.0.data/scripts/merge_masked_fasta_files.py' 2021-07-12T10:14:59,026 adding 'biocode-0.2.0.data/scripts/prepend_to_fasta_header.py' 2021-07-12T10:14:59,027 adding 'biocode-0.2.0.data/scripts/randomly_subsample_fastq.py' 2021-07-12T10:14:59,029 adding 'biocode-0.2.0.data/scripts/reformat_fasta_residue_lengths.py' 2021-07-12T10:14:59,030 adding 'biocode-0.2.0.data/scripts/remove_duplicate_features.py' 2021-07-12T10:14:59,031 adding 'biocode-0.2.0.data/scripts/remove_duplicate_sequences.py' 2021-07-12T10:14:59,033 adding 'biocode-0.2.0.data/scripts/remove_masked_gene_models.py' 2021-07-12T10:14:59,034 adding 'biocode-0.2.0.data/scripts/remove_orphaned_features.py' 2021-07-12T10:14:59,035 adding 'biocode-0.2.0.data/scripts/reorient_sequences_by_id.py' 2021-07-12T10:14:59,036 adding 'biocode-0.2.0.data/scripts/replace_gff_type_column_value.py' 2021-07-12T10:14:59,038 adding 'biocode-0.2.0.data/scripts/replace_homopolymeric_repeats_with_Ns.py' 2021-07-12T10:14:59,039 adding 'biocode-0.2.0.data/scripts/report_basic_gff_model_agreement.py' 2021-07-12T10:14:59,041 adding 'biocode-0.2.0.data/scripts/report_coverage_gaps.py' 2021-07-12T10:14:59,042 adding 'biocode-0.2.0.data/scripts/report_gff3_statistics.py' 2021-07-12T10:14:59,044 adding 'biocode-0.2.0.data/scripts/report_gff_intron_and_intergenic_stats.py' 2021-07-12T10:14:59,046 adding 'biocode-0.2.0.data/scripts/report_or_replace_nonstandard_residues.py' 2021-07-12T10:14:59,047 adding 'biocode-0.2.0.data/scripts/reverse_misordered_cds_coords.py' 2021-07-12T10:14:59,048 adding 'biocode-0.2.0.data/scripts/select_training_and_evaluation_transcripts.py' 2021-07-12T10:14:59,050 adding 'biocode-0.2.0.data/scripts/set_source_column.py' 2021-07-12T10:14:59,051 adding 'biocode-0.2.0.data/scripts/split_fasta_into_even_files.py' 2021-07-12T10:14:59,053 adding 'biocode-0.2.0.data/scripts/split_interleaved_sequence_file.py' 2021-07-12T10:14:59,054 adding 'biocode-0.2.0.data/scripts/split_isoforms_into_individual_genes.py' 2021-07-12T10:14:59,055 adding 'biocode-0.2.0.data/scripts/split_molecules_on_gaps.py' 2021-07-12T10:14:59,057 adding 'biocode-0.2.0.data/scripts/subsample_fasta.py' 2021-07-12T10:14:59,058 adding 'biocode-0.2.0.data/scripts/tigrfam_info_to_sqlite3.py' 2021-07-12T10:14:59,060 adding 'biocode-0.2.0.data/scripts/uniprot_sprot_to_sqlite3.py' 2021-07-12T10:14:59,061 adding 'biocode-0.2.0.data/scripts/uniref_to_sqlite3.py' 2021-07-12T10:14:59,063 adding 'biocode-0.2.0.data/scripts/update_selected_column9_values.py' 2021-07-12T10:14:59,065 adding 'biocode-0.2.0.data/scripts/validate_fasta.py' 2021-07-12T10:14:59,066 adding 'biocode-0.2.0.data/scripts/validate_feature_boundaries_on_molecules.py' 2021-07-12T10:14:59,067 adding 'biocode-0.2.0.data/scripts/write_fasta_from_gff.py' 2021-07-12T10:14:59,070 adding 'biocode-0.2.0.dist-info/LICENSE' 2021-07-12T10:14:59,071 adding 'biocode-0.2.0.dist-info/METADATA' 2021-07-12T10:14:59,072 adding 'biocode-0.2.0.dist-info/WHEEL' 2021-07-12T10:14:59,073 adding 'biocode-0.2.0.dist-info/top_level.txt' 2021-07-12T10:14:59,075 adding 'biocode-0.2.0.dist-info/RECORD' 2021-07-12T10:14:59,080 removing build/bdist.linux-armv7l/wheel 2021-07-12T10:14:59,196 Building wheel for biocode (setup.py): finished with status 'done' 2021-07-12T10:14:59,200 Created wheel for biocode: filename=biocode-0.2.0-py3-none-any.whl size=192666 sha256=552b663044ffd5a76d432ac46e0b3ed5d11cd065bb16cc3598b0bdb77595b7ff 2021-07-12T10:14:59,200 Stored in directory: /tmp/pip-ephem-wheel-cache-ehe_tq8q/wheels/66/17/ac/223c28cf958b4f6f8ac9dec86093b6468346a21669d20478d6 2021-07-12T10:14:59,212 Successfully built biocode 2021-07-12T10:14:59,227 Removed build tracker: '/tmp/pip-req-tracker-esrg7q9z'