Collecting bcbio-nextgen==1.0.8 1 location(s) to search for versions of bcbio-nextgen: * https://pypi.python.org/simple/bcbio-nextgen/ Getting page https://pypi.python.org/simple/bcbio-nextgen/ Analyzing links from page https://pypi.python.org/simple/bcbio-nextgen/ Found link https://pypi.python.org/packages/04/ab/ea3503c78061042ccb61cce862f4cd68d2c564e8f296acf2f71f8dbcc6fc/bcbio-nextgen-0.9.7.tar.gz#md5=6757ab45fabebc2db0c70233340cee78 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.9.7 Found link https://pypi.python.org/packages/0a/ab/5d08edea02995bb2ac541f93f2fde345bda1fd698db51d530e8c6ef799d4/bcbio-nextgen-0.8.1.tar.gz#md5=a08d25cdefb51aa66874f27e30bbcbee (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.8.1 Found link https://pypi.python.org/packages/0c/53/ccd73a90da3a6f40fc5a4445f680a746a2c312740a6333512bb545492d08/bcbio-nextgen-0.8.4.tar.gz#md5=7130b6fd7244a820a8871aff52d68c88 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.8.4 Found link https://pypi.python.org/packages/0e/49/246923a06b97219180d601b7b57fba2ccf7c2a203ed4fd83d95a90614a39/bcbio-nextgen-0.4a.tar.gz#md5=5ec1858c2be12e9ef1b58e9cb6dd839c (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.4a Found link https://pypi.python.org/packages/0f/e6/a8cd04ba5d0d7c56948d6d60995ae9d25b518850f07473014c86c75bf35e/bcbio-nextgen-0.8.6.tar.gz#md5=8fd1c1eedbf94de70ff83e4164d33f6c (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.8.6 Found link https://pypi.python.org/packages/1b/86/07a58792badfcc88f06f80a3ff0271c1fb5ed63967db858993a2bd01a4f2/bcbio-nextgen-0.5a.tar.gz#md5=2e557040eb81b9923523f35bb05abf7d (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.5a Found link https://pypi.python.org/packages/25/1a/53dce1139fb636f098a44e752984b28a0ad3ba29846f82f4a35f912009a8/bcbio-nextgen-0.6.0.tar.gz#md5=2eccf316a872a41f6f835172f9a883f3 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.6.0 Found link https://pypi.python.org/packages/28/b1/86714ac61cf22aecf3edebccb1a5523b0a199e63eee71c1a28dfd08c43e2/bcbio-nextgen-1.0.6.tar.gz#md5=fb127b61146e98f38720d2d120f08378 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 1.0.6 Found link https://pypi.python.org/packages/2c/51/248ee5d81d87a840ed16871a716df0743162800ffdbbde2a220e5aef3b5e/bcbio-nextgen-0.9.6.tar.gz#md5=d0947cff896a5609f9e58807f570e4e1 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.9.6 Found link https://pypi.python.org/packages/2c/ff/da0d27f43a045fbef606b20c311dd6003fa17964964907b88e0cafb38cfd/bcbio-nextgen-0.9.8.tar.gz#md5=9c7ed62caef5363a0ed95d6a9c390396 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.9.8 Found link https://pypi.python.org/packages/31/86/1d2c03d9e72fa7b57d8b937d4adb134c8fee77d14533ce9d8a122f6ade9b/bcbio-nextgen-0.9.2.tar.gz#md5=c2ac7f80cf02d560d187843e610781fc (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.9.2 Found link https://pypi.python.org/packages/39/16/1b482d3ce7c8019170dbb57366d25d4edef5426f7afb9c41681bf1eefdd8/bcbio-nextgen-0.8.0.tar.gz#md5=5d9ec2eed5915cc4fd9788923040dda6 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.8.0 Found link https://pypi.python.org/packages/3c/00/cd089625b82d0bdbdcd1586943215bf7dc400fa969cfa0cc9d91f31f14a9/bcbio-nextgen-0.7.6.tar.gz#md5=4c81262e0a84a82e9593b8c0443a24d6 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.7.6 Found link https://pypi.python.org/packages/3f/c0/f8e46f5cbc3b4f04f94670b157737c2a402f40a2a5cc6168d7f1dee58f9e/bcbio-nextgen-1.0.2.tar.gz#md5=0b8e7bf553b15173aeaa06102afa021a (from https://pypi.python.org/simple/bcbio-nextgen/), version: 1.0.2 Found link https://pypi.python.org/packages/42/52/a2c108454f73a4c4f26bdc60e9ae4f0e39dce1a5a028cad9dc9b3342f2dd/bcbio-nextgen-0.6.3.tar.gz#md5=c25b76482362e4127741763075f4dd31 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.6.3 Found link https://pypi.python.org/packages/4a/43/30a04e4310af185731103fe7cef346c7845beb1815f78c7d6bb06c2008f4/bcbio-nextgen-0.7.9.tar.gz#md5=854839d3dfc4b9d6917455980cd424b2 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.7.9 Found link https://pypi.python.org/packages/4b/78/6a058027a7221918918c828d823431d54323886e9463e0f0894fcc8aa0ae/bcbio-nextgen-0.9.4.tar.gz#md5=8a55690b6f7bba5d9eaf891e04ffe454 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.9.4 Found link https://pypi.python.org/packages/4e/e2/4b79494eb9009a25d3e4f7177481c673fbb13073b4dbcd49436e14a21c10/bcbio-nextgen-0.7.3.tar.gz#md5=936f228c981c33240f1efbadc0d4dacc (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.7.3 Found link https://pypi.python.org/packages/4f/90/36f1908ef62b954102604cdfe9d4d7d490131050ae0cd294e27bac5989cc/bcbio-nextgen-0.9.9.tar.gz#md5=b7ff9a89c247016282762f2f1ae9a036 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.9.9 Found link https://pypi.python.org/packages/52/a0/391f6e8a059dfccf575f1f1e83ebf8892c0e58ba20e4dc1bb176a0106559/bcbio-nextgen-0.9.5.tar.gz#md5=f0652c81918804efbe490209b7664b4c (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.9.5 Found link https://pypi.python.org/packages/54/a8/294b8b612fbf5daf2b6bb2b0ed16acf05325e14868bd0873c1a638e829c8/bcbio-nextgen-0.6.2.tar.gz#md5=e258aaf392dc6e1fd3289aa12ce30dc1 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.6.2 Found link https://pypi.python.org/packages/59/8e/7ee38b036eb4a5aca69c87240f37f258935970c6019ec1d6976a55f3c43a/bcbio-nextgen-0.7.8.tar.gz#md5=09ff71511f038a0ae12e9f1041ee4d71 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.7.8 Found link https://pypi.python.org/packages/5d/ee/ff8e669ede6d5c0f628034096224f9b664354ec59ce3f17a40808261f025/bcbio-nextgen-1.0.3.tar.gz#md5=0dcd2f02cc2d35dc00ec2acd04d7bb9e (from https://pypi.python.org/simple/bcbio-nextgen/), version: 1.0.3 Found link https://pypi.python.org/packages/67/0e/07624aac63f5880e054358df38351cd1dbc27ce883e593e84d3ce45b05fb/bcbio-nextgen-0.8.7.tar.gz#md5=a1cd93c58ca3b52bcf4d30252a19293d (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.8.7 Found link https://pypi.python.org/packages/67/33/0e73cd1eb421de225133e49611df59d74a4323c2e5eb8233dd1ba37c5fb0/bcbio-nextgen-0.7.1.tar.gz#md5=764eba77e32f246dc425c655f59b896c (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.7.1 Found link https://pypi.python.org/packages/6b/71/e23ecfc068f31073b8e6f6124f373172b4a0ed4ea378b6035d57a66bdf78/bcbio-nextgen-0.8.5.tar.gz#md5=e110388b04f4a546abd8b4a020534d10 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.8.5 Found link https://pypi.python.org/packages/70/1c/4b34b2955e7f269f62ed7c1a5ab5d5ad93a70adb84bb3d80d7b7a31dd349/bcbio-nextgen-1.0.7.tar.gz#md5=8115ebba9e6f350849104dd674810599 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 1.0.7 Found link https://pypi.python.org/packages/76/96/736cf2cd2ce04a683e93cfcbeb6fb506f0c5f778c90973ae1e7dedf3fe04/bcbio-nextgen-0.8.8.tar.gz#md5=2bbe6bf3a54586e32070fdcd28c530df (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.8.8 Found link https://pypi.python.org/packages/77/ba/29c493ef6f10eff436102d19f75989d6cd970cb2e7f915f246fbaa945b14/bcbio-nextgen-1.0.1.tar.gz#md5=b0734f467cd511ca629ed739fb08495c (from https://pypi.python.org/simple/bcbio-nextgen/), version: 1.0.1 Found link https://pypi.python.org/packages/7d/58/141f458d7d87ece7617734b4af5384083c8eca4889f5e5cf58d8b2061d5a/bcbio-nextgen-0.7.2.tar.gz#md5=dbb4b5a01a0f3f28131b1959c58fab7d (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.7.2 Found link https://pypi.python.org/packages/89/37/ec78b367793f642c18e18e9c745f78ba8915f3c439a550f7ee98658e9c5e/bcbio-nextgen-0.8.3.tar.gz#md5=83ca3276270005a743d35c3e1f6a6be7 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.8.3 Found link https://pypi.python.org/packages/8a/45/abe92157e562d77214a69e9a144f61dd6048e2f0426eeed6aa35f6b972fc/bcbio-nextgen-1.0.4.tar.gz#md5=4cff22e922c9ba6c4264616514d2595d (from https://pypi.python.org/simple/bcbio-nextgen/), version: 1.0.4 Found link https://pypi.python.org/packages/8d/5b/80d5b73b534e485cb0254ca8e6460f7236737937a65c1b55d0dbbc9b717b/bcbio-nextgen-1.0.0.tar.gz#md5=0b78a9b725a505dbeb489c7b418afe1a (from https://pypi.python.org/simple/bcbio-nextgen/), version: 1.0.0 Found link https://pypi.python.org/packages/90/b4/bb05fa6c09806f2719dce479ec31a88ad1d221635869b16db8ec83734f7b/bcbio-nextgen-0.1.tar.gz#md5=07b43f6e76de9e2be3d8bad12130b3b6 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.1 Found link https://pypi.python.org/packages/9e/07/a813761539d957db2b49b65e4f9561a3dfcd5794f0a4f5024567df7cfe77/bcbio-nextgen-0.2.tar.gz#md5=7f3b254aee51b00142a3e511b08b15ab (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.2 Found link https://pypi.python.org/packages/a1/47/b90385c1a709c47540bd3d89955dc7095112c9475a8ef177bd5cc89c416f/bcbio-nextgen-0.6.5.tar.gz#md5=1de76aabb17d0ce8074f5cff419ee139 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.6.5 Found link https://pypi.python.org/packages/a1/d2/9d42dc312944f16f16ee4bc681282d4d5780d3c847a42c569e2f8515084d/bcbio-nextgen-0.7.7.tar.gz#md5=2aa05b9689d3145c673cb2983186de7e (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.7.7 Found link https://pypi.python.org/packages/a4/16/893513acd5a000c52caeb2a4e1a73bd509ca68fe7ebbd8c2640c20a94e59/bcbio-nextgen-0.7.0.tar.gz#md5=567dbbfca691255f99551c10c3e485c8 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.7.0 Found link https://pypi.python.org/packages/a4/c0/bac1aa31690cbe10fe0dd61c9c2d3067e24f875af778f8e3b7eb71bba89f/bcbio-nextgen-0.6.1.tar.gz#md5=1edd7058e85c03c97f74f56495c1ecb0 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.6.1 Found link https://pypi.python.org/packages/a5/3c/435e5628fcd2a7dae9d5bb039f58d75d08401ecaad3be503853357c1d55b/bcbio-nextgen-1.0.5.tar.gz#md5=95c4d17943f9fe3b7ad10ccc6676897c (from https://pypi.python.org/simple/bcbio-nextgen/), version: 1.0.5 Found link https://pypi.python.org/packages/a6/e2/da783ca47d89b8826254b0f2b6f71434b8b93aef7519ba16cae269d51dc1/bcbio-nextgen-1.0.8.tar.gz#md5=b21eedca4393e627e0edcba40f38cce1 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 1.0.8 Found link https://pypi.python.org/packages/cd/a7/23656a7e8496f336a87dbb1b5d0ee02ad97314dff7bb6fc710c571b10d5c/bcbio-nextgen-0.6.4.tar.gz#md5=33e304176909c083b54632dacb5c8662 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.6.4 Found link https://pypi.python.org/packages/d6/64/1433ac732c4aef46f372ca24ca35885d9074a4ac08f9ac6459cab0b079ea/bcbio-nextgen-0.9.3.tar.gz#md5=d2986e60c4a1a73c0d3253c3abe2ff62 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.9.3 Found link https://pypi.python.org/packages/d6/a9/1509d203cf16d94ca148df16f58541b02d0da30354c1c634b04858b6b63d/bcbio-nextgen-0.8.9.tar.gz#md5=44fd93a457d682eabfece15da5176423 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.8.9 Found link https://pypi.python.org/packages/d8/bd/96a98ff06cf63ef15e57e5dacda8b3fb82a7cc1ecbe815a661f174233110/bcbio-nextgen-0.9.4a0.tar.gz#md5=b705a24c234046dce448ea90eec750ba (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.9.4a0 Found link https://pypi.python.org/packages/dc/8c/1a3069f894e8e3a96abd1ad8373b8444403ef2a8590af7da2b1297a91dcc/bcbio-nextgen-0.7.5.tar.gz#md5=47f3576b6c9803c0b9423dcb29d89eec (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.7.5 Found link https://pypi.python.org/packages/e5/81/769499ad121b39cd71e65e306eb07d8f3af1dc8f6ff4db513515d54a9bc2/bcbio-nextgen-0.9.1.tar.gz#md5=c027c694561f6a4252a4086fffdaff2a (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.9.1 Found link https://pypi.python.org/packages/e5/bd/f241e01c73ea4a559453e253e2873b762570f6508d341115828740baa072/bcbio-nextgen-0.7.4.tar.gz#md5=6bfdf8889f03ef84f4a6f6337f01521a (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.7.4 Found link https://pypi.python.org/packages/e5/dc/16102e9b8b33dee3da0baa9c8a217afd12c62e3113257f4f12e90f78345e/bcbio-nextgen-0.8.2.tar.gz#md5=9156355821fd12924e40dbe8269abdf9 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.8.2 Found link https://pypi.python.org/packages/f5/0c/55a4d47997a5b754d4f9072f70a7e3ac9173703c542f433f038ec86cb17c/bcbio-nextgen-0.9.0.tar.gz#md5=d913ecd9acc270319199a6f28e2c1af8 (from https://pypi.python.org/simple/bcbio-nextgen/), version: 0.9.0 Using version 1.0.8 (newest of versions: 1.0.8) Downloading bcbio-nextgen-1.0.8.tar.gz (562kB) Downloading from URL https://pypi.python.org/packages/a6/e2/da783ca47d89b8826254b0f2b6f71434b8b93aef7519ba16cae269d51dc1/bcbio-nextgen-1.0.8.tar.gz#md5=b21eedca4393e627e0edcba40f38cce1 (from https://pypi.python.org/simple/bcbio-nextgen/) Running setup.py (path:/tmp/pip-build-ahoya8ym/bcbio-nextgen/setup.py) egg_info for package bcbio-nextgen Running command python setup.py egg_info fatal: Not a git repository (or any of the parent directories): .git running egg_info creating pip-egg-info/bcbio_nextgen.egg-info writing top-level names to pip-egg-info/bcbio_nextgen.egg-info/top_level.txt writing pip-egg-info/bcbio_nextgen.egg-info/PKG-INFO writing dependency_links to pip-egg-info/bcbio_nextgen.egg-info/dependency_links.txt writing manifest file 'pip-egg-info/bcbio_nextgen.egg-info/SOURCES.txt' reading manifest file 'pip-egg-info/bcbio_nextgen.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'config/*.ini' writing manifest file 'pip-egg-info/bcbio_nextgen.egg-info/SOURCES.txt' Source in /tmp/pip-build-ahoya8ym/bcbio-nextgen has version 1.0.8, which satisfies requirement bcbio-nextgen==1.0.8 from https://pypi.python.org/packages/a6/e2/da783ca47d89b8826254b0f2b6f71434b8b93aef7519ba16cae269d51dc1/bcbio-nextgen-1.0.8.tar.gz#md5=b21eedca4393e627e0edcba40f38cce1 Building wheels for collected packages: bcbio-nextgen Running setup.py bdist_wheel for bcbio-nextgen: started Destination directory: /tmp/tmpbmwmyw9ppip-wheel- Running command /usr/bin/python3 -u -c "import setuptools, tokenize;__file__='/tmp/pip-build-ahoya8ym/bcbio-nextgen/setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" bdist_wheel -d /tmp/tmpbmwmyw9ppip-wheel- fatal: Not a git repository (or any of the parent directories): .git running bdist_wheel running build running build_py creating build creating build/lib creating build/lib/bcbio copying bcbio/utils.py -> build/lib/bcbio copying bcbio/__init__.py -> build/lib/bcbio copying bcbio/install.py -> build/lib/bcbio copying bcbio/setpath.py -> build/lib/bcbio creating build/lib/bcbio/srna copying bcbio/srna/qc.py -> build/lib/bcbio/srna copying bcbio/srna/__init__.py -> build/lib/bcbio/srna copying bcbio/srna/sample.py -> build/lib/bcbio/srna copying bcbio/srna/mirdeep.py -> build/lib/bcbio/srna copying bcbio/srna/group.py -> build/lib/bcbio/srna creating build/lib/bcbio/rnaseq copying bcbio/rnaseq/variation.py -> build/lib/bcbio/rnaseq copying bcbio/rnaseq/rsem.py -> build/lib/bcbio/rnaseq copying bcbio/rnaseq/sailfish.py -> build/lib/bcbio/rnaseq copying bcbio/rnaseq/cufflinks.py -> build/lib/bcbio/rnaseq copying bcbio/rnaseq/pizzly.py -> build/lib/bcbio/rnaseq copying bcbio/rnaseq/qc.py -> build/lib/bcbio/rnaseq copying bcbio/rnaseq/__init__.py -> build/lib/bcbio/rnaseq copying bcbio/rnaseq/spikein.py -> build/lib/bcbio/rnaseq copying bcbio/rnaseq/oncofuse.py -> build/lib/bcbio/rnaseq copying bcbio/rnaseq/count.py -> build/lib/bcbio/rnaseq copying bcbio/rnaseq/umi.py -> build/lib/bcbio/rnaseq copying bcbio/rnaseq/gtf.py -> build/lib/bcbio/rnaseq copying bcbio/rnaseq/cpat.py -> build/lib/bcbio/rnaseq copying bcbio/rnaseq/annotate_gtf.py -> build/lib/bcbio/rnaseq copying bcbio/rnaseq/salmon.py -> build/lib/bcbio/rnaseq copying bcbio/rnaseq/express.py -> build/lib/bcbio/rnaseq copying bcbio/rnaseq/rapmap.py -> build/lib/bcbio/rnaseq copying bcbio/rnaseq/kallisto.py -> build/lib/bcbio/rnaseq copying bcbio/rnaseq/featureCounts.py -> build/lib/bcbio/rnaseq copying bcbio/rnaseq/stringtie.py -> build/lib/bcbio/rnaseq copying bcbio/rnaseq/ericscript.py -> build/lib/bcbio/rnaseq copying bcbio/rnaseq/dexseq.py -> build/lib/bcbio/rnaseq creating build/lib/bcbio/ngsalign copying bcbio/ngsalign/__init__.py -> build/lib/bcbio/ngsalign copying bcbio/ngsalign/novoalign.py -> build/lib/bcbio/ngsalign copying bcbio/ngsalign/alignprep.py -> build/lib/bcbio/ngsalign copying bcbio/ngsalign/bwa.py -> build/lib/bcbio/ngsalign copying bcbio/ngsalign/bowtie2.py -> build/lib/bcbio/ngsalign copying bcbio/ngsalign/bowtie.py -> build/lib/bcbio/ngsalign copying bcbio/ngsalign/postalign.py -> build/lib/bcbio/ngsalign copying bcbio/ngsalign/hisat2.py -> build/lib/bcbio/ngsalign copying bcbio/ngsalign/mosaik.py -> build/lib/bcbio/ngsalign copying bcbio/ngsalign/star.py -> build/lib/bcbio/ngsalign copying bcbio/ngsalign/tophat.py -> build/lib/bcbio/ngsalign copying bcbio/ngsalign/snap.py -> build/lib/bcbio/ngsalign copying bcbio/ngsalign/minimap2.py -> build/lib/bcbio/ngsalign copying bcbio/ngsalign/rtg.py -> build/lib/bcbio/ngsalign creating build/lib/bcbio/illumina copying bcbio/illumina/transfer.py -> build/lib/bcbio/illumina copying bcbio/illumina/__init__.py -> build/lib/bcbio/illumina copying bcbio/illumina/machine.py -> build/lib/bcbio/illumina copying bcbio/illumina/flowcell.py -> build/lib/bcbio/illumina copying bcbio/illumina/demultiplex.py -> build/lib/bcbio/illumina copying bcbio/illumina/samplesheet.py -> build/lib/bcbio/illumina creating build/lib/bcbio/distributed copying bcbio/distributed/split.py -> build/lib/bcbio/distributed copying bcbio/distributed/__init__.py -> build/lib/bcbio/distributed copying bcbio/distributed/clusterk.py -> build/lib/bcbio/distributed copying bcbio/distributed/transaction.py -> build/lib/bcbio/distributed copying bcbio/distributed/resources.py -> build/lib/bcbio/distributed copying bcbio/distributed/ipythontasks.py -> build/lib/bcbio/distributed copying bcbio/distributed/runfn.py -> build/lib/bcbio/distributed copying bcbio/distributed/objectstore.py -> build/lib/bcbio/distributed copying bcbio/distributed/ipython.py -> build/lib/bcbio/distributed copying bcbio/distributed/multi.py -> build/lib/bcbio/distributed copying bcbio/distributed/multitasks.py -> build/lib/bcbio/distributed copying bcbio/distributed/clargs.py -> build/lib/bcbio/distributed copying bcbio/distributed/prun.py -> build/lib/bcbio/distributed creating build/lib/bcbio/pipeline copying bcbio/pipeline/genome.py -> build/lib/bcbio/pipeline copying bcbio/pipeline/variation.py -> build/lib/bcbio/pipeline copying bcbio/pipeline/main.py -> build/lib/bcbio/pipeline copying bcbio/pipeline/qcsummary.py -> build/lib/bcbio/pipeline copying bcbio/pipeline/archive.py -> build/lib/bcbio/pipeline copying bcbio/pipeline/shared.py -> build/lib/bcbio/pipeline copying bcbio/pipeline/rnaseq.py -> build/lib/bcbio/pipeline copying bcbio/pipeline/__init__.py -> build/lib/bcbio/pipeline copying bcbio/pipeline/sra.py -> build/lib/bcbio/pipeline copying bcbio/pipeline/tools.py -> build/lib/bcbio/pipeline copying bcbio/pipeline/region.py -> build/lib/bcbio/pipeline copying bcbio/pipeline/fastq.py -> build/lib/bcbio/pipeline copying bcbio/pipeline/merge.py -> build/lib/bcbio/pipeline copying bcbio/pipeline/sample.py -> build/lib/bcbio/pipeline copying bcbio/pipeline/run_info.py -> build/lib/bcbio/pipeline copying bcbio/pipeline/alignment.py -> build/lib/bcbio/pipeline copying bcbio/pipeline/version.py -> build/lib/bcbio/pipeline copying bcbio/pipeline/config_utils.py -> build/lib/bcbio/pipeline copying bcbio/pipeline/cleanbam.py -> build/lib/bcbio/pipeline copying bcbio/pipeline/datadict.py -> build/lib/bcbio/pipeline creating build/lib/bcbio/heterogeneity copying bcbio/heterogeneity/bubbletree.py -> build/lib/bcbio/heterogeneity copying bcbio/heterogeneity/__init__.py -> build/lib/bcbio/heterogeneity copying bcbio/heterogeneity/phylowgs.py -> build/lib/bcbio/heterogeneity copying bcbio/heterogeneity/chromhacks.py -> build/lib/bcbio/heterogeneity copying bcbio/heterogeneity/theta.py -> build/lib/bcbio/heterogeneity creating build/lib/bcbio/broad copying bcbio/broad/__init__.py -> build/lib/bcbio/broad copying bcbio/broad/metrics.py -> build/lib/bcbio/broad copying bcbio/broad/picardrun.py -> build/lib/bcbio/broad creating build/lib/bcbio/cwl copying bcbio/cwl/main.py -> build/lib/bcbio/cwl copying bcbio/cwl/__init__.py -> build/lib/bcbio/cwl copying bcbio/cwl/inspect.py -> build/lib/bcbio/cwl copying bcbio/cwl/tool.py -> build/lib/bcbio/cwl copying bcbio/cwl/create.py -> build/lib/bcbio/cwl copying bcbio/cwl/workflow.py -> build/lib/bcbio/cwl copying bcbio/cwl/defs.py -> build/lib/bcbio/cwl copying bcbio/cwl/cwlutils.py -> build/lib/bcbio/cwl creating build/lib/bcbio/graph copying bcbio/graph/graph.py -> build/lib/bcbio/graph copying bcbio/graph/__init__.py -> build/lib/bcbio/graph copying bcbio/graph/collectl.py -> build/lib/bcbio/graph creating build/lib/bcbio/structural copying bcbio/structural/delly.py -> build/lib/bcbio/structural copying bcbio/structural/regions.py -> build/lib/bcbio/structural copying bcbio/structural/shared.py -> build/lib/bcbio/structural copying bcbio/structural/titancna.py -> build/lib/bcbio/structural copying bcbio/structural/__init__.py -> build/lib/bcbio/structural copying bcbio/structural/convert.py -> build/lib/bcbio/structural copying bcbio/structural/lumpy.py -> build/lib/bcbio/structural copying bcbio/structural/annotate.py -> build/lib/bcbio/structural copying bcbio/structural/cnvkit.py -> build/lib/bcbio/structural copying bcbio/structural/battenberg.py -> build/lib/bcbio/structural copying bcbio/structural/cn_mops.py -> build/lib/bcbio/structural copying bcbio/structural/pindel.py -> build/lib/bcbio/structural copying bcbio/structural/seq2c.py -> build/lib/bcbio/structural copying bcbio/structural/manta.py -> build/lib/bcbio/structural copying bcbio/structural/validate.py -> build/lib/bcbio/structural copying bcbio/structural/prioritize.py -> build/lib/bcbio/structural copying bcbio/structural/metasv.py -> build/lib/bcbio/structural copying bcbio/structural/gridss.py -> build/lib/bcbio/structural copying bcbio/structural/plot.py -> build/lib/bcbio/structural copying bcbio/structural/hydra.py -> build/lib/bcbio/structural copying bcbio/structural/wham.py -> build/lib/bcbio/structural creating build/lib/bcbio/provenance copying bcbio/provenance/versioncheck.py -> build/lib/bcbio/provenance copying bcbio/provenance/__init__.py -> build/lib/bcbio/provenance copying bcbio/provenance/profile.py -> build/lib/bcbio/provenance copying bcbio/provenance/programs.py -> build/lib/bcbio/provenance copying bcbio/provenance/diagnostics.py -> build/lib/bcbio/provenance copying bcbio/provenance/do.py -> build/lib/bcbio/provenance copying bcbio/provenance/data.py -> build/lib/bcbio/provenance copying bcbio/provenance/system.py -> build/lib/bcbio/provenance creating build/lib/bcbio/picard copying bcbio/picard/utils.py -> build/lib/bcbio/picard copying bcbio/picard/__init__.py -> build/lib/bcbio/picard copying bcbio/picard/metrics.py -> build/lib/bcbio/picard creating build/lib/bcbio/server copying bcbio/server/main.py -> build/lib/bcbio/server copying bcbio/server/__init__.py -> build/lib/bcbio/server copying bcbio/server/run.py -> build/lib/bcbio/server copying bcbio/server/background.py -> build/lib/bcbio/server creating build/lib/bcbio/chipseq copying bcbio/chipseq/__init__.py -> build/lib/bcbio/chipseq copying bcbio/chipseq/macs2.py -> build/lib/bcbio/chipseq copying bcbio/chipseq/peaks.py -> build/lib/bcbio/chipseq creating build/lib/bcbio/bam copying bcbio/bam/ref.py -> build/lib/bcbio/bam copying bcbio/bam/cram.py -> build/lib/bcbio/bam copying bcbio/bam/fasta.py -> build/lib/bcbio/bam copying bcbio/bam/__init__.py -> build/lib/bcbio/bam copying bcbio/bam/callable.py -> build/lib/bcbio/bam copying bcbio/bam/coverage.py -> build/lib/bcbio/bam copying bcbio/bam/trim.py -> build/lib/bcbio/bam copying bcbio/bam/skewer.py -> build/lib/bcbio/bam copying bcbio/bam/fastq.py -> build/lib/bcbio/bam copying bcbio/bam/counts.py -> build/lib/bcbio/bam copying bcbio/bam/readstats.py -> build/lib/bcbio/bam creating build/lib/bcbio/workflow copying bcbio/workflow/__init__.py -> build/lib/bcbio/workflow copying bcbio/workflow/xprize.py -> build/lib/bcbio/workflow copying bcbio/workflow/template.py -> build/lib/bcbio/workflow copying bcbio/workflow/stormseq.py -> build/lib/bcbio/workflow creating build/lib/bcbio/hmmer copying bcbio/hmmer/__init__.py -> build/lib/bcbio/hmmer copying bcbio/hmmer/search.py -> build/lib/bcbio/hmmer creating build/lib/bcbio/bed copying bcbio/bed/__init__.py -> build/lib/bcbio/bed creating build/lib/bcbio/variation copying bcbio/variation/deepvariant.py -> build/lib/bcbio/variation copying bcbio/variation/realign.py -> build/lib/bcbio/variation copying bcbio/variation/ploidy.py -> build/lib/bcbio/variation copying bcbio/variation/vcfutils.py -> build/lib/bcbio/variation copying bcbio/variation/qsnp.py -> build/lib/bcbio/variation copying bcbio/variation/peddy.py -> build/lib/bcbio/variation copying bcbio/variation/split.py -> build/lib/bcbio/variation copying bcbio/variation/effects.py -> build/lib/bcbio/variation copying bcbio/variation/population.py -> build/lib/bcbio/variation copying bcbio/variation/__init__.py -> build/lib/bcbio/variation copying bcbio/variation/coverage.py -> build/lib/bcbio/variation copying bcbio/variation/scalpel.py -> build/lib/bcbio/variation copying bcbio/variation/recalibrate.py -> build/lib/bcbio/variation copying bcbio/variation/damage.py -> build/lib/bcbio/variation copying bcbio/variation/cortex.py -> build/lib/bcbio/variation copying bcbio/variation/sentieon.py -> build/lib/bcbio/variation copying bcbio/variation/strelka2.py -> build/lib/bcbio/variation copying bcbio/variation/vardict.py -> build/lib/bcbio/variation copying bcbio/variation/gatkfilter.py -> build/lib/bcbio/variation copying bcbio/variation/naming.py -> build/lib/bcbio/variation copying bcbio/variation/mutect.py -> build/lib/bcbio/variation copying bcbio/variation/ensemble.py -> build/lib/bcbio/variation copying bcbio/variation/annotation.py -> build/lib/bcbio/variation copying bcbio/variation/gatk.py -> build/lib/bcbio/variation copying bcbio/variation/validate.py -> build/lib/bcbio/variation copying bcbio/variation/varscan.py -> build/lib/bcbio/variation copying bcbio/variation/prioritize.py -> build/lib/bcbio/variation copying bcbio/variation/bamprep.py -> build/lib/bcbio/variation copying bcbio/variation/mutect2.py -> build/lib/bcbio/variation copying bcbio/variation/samtools.py -> build/lib/bcbio/variation copying bcbio/variation/platypus.py -> build/lib/bcbio/variation copying bcbio/variation/validateplot.py -> build/lib/bcbio/variation copying bcbio/variation/multi.py -> build/lib/bcbio/variation copying bcbio/variation/vfilter.py -> build/lib/bcbio/variation copying bcbio/variation/joint.py -> build/lib/bcbio/variation copying bcbio/variation/gatkjoint.py -> build/lib/bcbio/variation copying bcbio/variation/genotype.py -> build/lib/bcbio/variation copying bcbio/variation/normalize.py -> build/lib/bcbio/variation copying bcbio/variation/bedutils.py -> build/lib/bcbio/variation copying bcbio/variation/germline.py -> build/lib/bcbio/variation copying bcbio/variation/vcfanno.py -> build/lib/bcbio/variation copying bcbio/variation/freebayes.py -> build/lib/bcbio/variation creating build/lib/bcbio/qc copying bcbio/qc/fastqc.py -> build/lib/bcbio/qc copying bcbio/qc/srna.py -> build/lib/bcbio/qc copying bcbio/qc/__init__.py -> build/lib/bcbio/qc copying bcbio/qc/coverage.py -> build/lib/bcbio/qc copying bcbio/qc/kraken.py -> build/lib/bcbio/qc copying bcbio/qc/umi.py -> build/lib/bcbio/qc copying bcbio/qc/qsignature.py -> build/lib/bcbio/qc copying bcbio/qc/viral.py -> build/lib/bcbio/qc copying bcbio/qc/damage.py -> build/lib/bcbio/qc copying bcbio/qc/qualimap.py -> build/lib/bcbio/qc copying bcbio/qc/picard.py -> build/lib/bcbio/qc copying bcbio/qc/multiqc.py -> build/lib/bcbio/qc copying bcbio/qc/atropos.py -> build/lib/bcbio/qc copying bcbio/qc/preseq.py -> build/lib/bcbio/qc copying bcbio/qc/samtools.py -> build/lib/bcbio/qc copying bcbio/qc/variant.py -> build/lib/bcbio/qc creating build/lib/bcbio/log copying bcbio/log/__init__.py -> build/lib/bcbio/log copying bcbio/log/logbook_zmqpush.py -> build/lib/bcbio/log creating build/lib/bcbio/galaxy copying bcbio/galaxy/api.py -> build/lib/bcbio/galaxy copying bcbio/galaxy/__init__.py -> build/lib/bcbio/galaxy copying bcbio/galaxy/nglims.py -> build/lib/bcbio/galaxy copying bcbio/galaxy/loc.py -> build/lib/bcbio/galaxy creating build/lib/bcbio/hla copying bcbio/hla/__init__.py -> build/lib/bcbio/hla copying bcbio/hla/groups.py -> build/lib/bcbio/hla copying bcbio/hla/bwakit.py -> build/lib/bcbio/hla copying bcbio/hla/optitype.py -> build/lib/bcbio/hla creating build/lib/bcbio/upload copying bcbio/upload/shared.py -> build/lib/bcbio/upload copying bcbio/upload/__init__.py -> build/lib/bcbio/upload copying bcbio/upload/s3.py -> build/lib/bcbio/upload copying bcbio/upload/filesystem.py -> build/lib/bcbio/upload copying bcbio/upload/irods.py -> build/lib/bcbio/upload copying bcbio/upload/galaxy.py -> build/lib/bcbio/upload creating build/lib/bcbio/pipeline/disambiguate copying bcbio/pipeline/disambiguate/__init__.py -> build/lib/bcbio/pipeline/disambiguate copying bcbio/pipeline/disambiguate/run.py -> build/lib/bcbio/pipeline/disambiguate creating build/lib/tests creating build/lib/tests/unit copying tests/unit/__init__.py -> build/lib/tests/unit copying tests/unit/test_alignprep.py -> build/lib/tests/unit copying tests/unit/conftest.py -> build/lib/tests/unit copying tests/unit/data.py -> build/lib/tests/unit creating build/lib/tests/integration copying tests/integration/test_pipeline.py -> build/lib/tests/integration copying tests/integration/test_S3_pipelines.py -> build/lib/tests/integration copying tests/integration/__init__.py -> build/lib/tests/integration copying tests/integration/test_automated_analysis.py -> build/lib/tests/integration copying tests/integration/test_SequencingDump.py -> build/lib/tests/integration creating build/lib/tests/unit/rnaseq copying tests/unit/rnaseq/__init__.py -> build/lib/tests/unit/rnaseq copying tests/unit/rnaseq/test_ericscript.py -> build/lib/tests/unit/rnaseq creating build/lib/tests/unit/ngsalign copying tests/unit/ngsalign/__init__.py -> build/lib/tests/unit/ngsalign creating build/lib/tests/unit/distributed copying tests/unit/distributed/test_transaction.py -> build/lib/tests/unit/distributed copying tests/unit/distributed/__init__.py -> build/lib/tests/unit/distributed creating build/lib/tests/unit/pipeline copying tests/unit/pipeline/__init__.py -> build/lib/tests/unit/pipeline copying tests/unit/pipeline/test_rnaseq.py -> build/lib/tests/unit/pipeline copying tests/unit/pipeline/test_datadict.py -> build/lib/tests/unit/pipeline creating build/lib/tests/unit/upload copying tests/unit/upload/__init__.py -> build/lib/tests/unit/upload copying tests/unit/upload/test_upload.py -> build/lib/tests/unit/upload creating build/lib/tests/integration/rnaseq copying tests/integration/rnaseq/__init__.py -> build/lib/tests/integration/rnaseq copying tests/integration/rnaseq/test_ericscript.py -> build/lib/tests/integration/rnaseq running egg_info writing bcbio_nextgen.egg-info/PKG-INFO writing dependency_links to bcbio_nextgen.egg-info/dependency_links.txt writing top-level names to bcbio_nextgen.egg-info/top_level.txt reading manifest file 'bcbio_nextgen.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching 'config/*.ini' writing manifest file 'bcbio_nextgen.egg-info/SOURCES.txt' creating build/lib/bcbio/data creating build/lib/bcbio/data/umis copying bcbio/data/umis/dropseq-transform.json -> build/lib/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v2-cb1.txt -> build/lib/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v2-cb2.txt -> build/lib/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v2-transform.json -> build/lib/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v3-cb1.txt -> build/lib/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v3-cb2.txt -> build/lib/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v3-sample_barcodes.txt -> build/lib/bcbio/data/umis copying bcbio/data/umis/harvard-indrop-v3-transform.json -> build/lib/bcbio/data/umis copying bcbio/data/umis/harvard-scrb-cb1.txt -> build/lib/bcbio/data/umis copying bcbio/data/umis/harvard-scrb-transform.json -> build/lib/bcbio/data/umis copying bcbio/data/umis/surecell-cb1.txt -> build/lib/bcbio/data/umis copying bcbio/data/umis/surecell-cb2.txt -> build/lib/bcbio/data/umis copying bcbio/data/umis/surecell-cb3.txt -> build/lib/bcbio/data/umis copying bcbio/data/umis/surecell-transform.json -> build/lib/bcbio/data/umis running build_scripts creating build/scripts-3.4 copying and adjusting scripts/bcbio_nextgen.py -> build/scripts-3.4 copying and adjusting scripts/bcbio_setup_genome.py -> build/scripts-3.4 copying and adjusting scripts/bcbio_prepare_samples.py -> build/scripts-3.4 copying and adjusting scripts/bcbio_fastq_umi_prep.py -> build/scripts-3.4 copying and adjusting scripts/cwltool2wdl.py -> build/scripts-3.4 changing mode of build/scripts-3.4/bcbio_nextgen.py from 644 to 755 changing mode of build/scripts-3.4/bcbio_setup_genome.py from 644 to 755 changing mode of build/scripts-3.4/bcbio_prepare_samples.py from 644 to 755 changing mode of build/scripts-3.4/bcbio_fastq_umi_prep.py from 644 to 755 changing mode of build/scripts-3.4/cwltool2wdl.py from 644 to 755 installing to build/bdist.linux-armv7l/wheel running install running install_lib creating build/bdist.linux-armv7l creating build/bdist.linux-armv7l/wheel creating build/bdist.linux-armv7l/wheel/bcbio creating build/bdist.linux-armv7l/wheel/bcbio/data creating build/bdist.linux-armv7l/wheel/bcbio/data/umis copying build/lib/bcbio/data/umis/harvard-indrop-v3-cb1.txt -> build/bdist.linux-armv7l/wheel/bcbio/data/umis copying build/lib/bcbio/data/umis/surecell-transform.json -> build/bdist.linux-armv7l/wheel/bcbio/data/umis copying build/lib/bcbio/data/umis/harvard-indrop-v3-transform.json -> build/bdist.linux-armv7l/wheel/bcbio/data/umis copying build/lib/bcbio/data/umis/surecell-cb3.txt -> build/bdist.linux-armv7l/wheel/bcbio/data/umis copying build/lib/bcbio/data/umis/harvard-indrop-v3-sample_barcodes.txt -> build/bdist.linux-armv7l/wheel/bcbio/data/umis copying build/lib/bcbio/data/umis/harvard-indrop-v2-cb2.txt -> build/bdist.linux-armv7l/wheel/bcbio/data/umis copying build/lib/bcbio/data/umis/harvard-indrop-v2-cb1.txt -> build/bdist.linux-armv7l/wheel/bcbio/data/umis copying build/lib/bcbio/data/umis/surecell-cb2.txt -> build/bdist.linux-armv7l/wheel/bcbio/data/umis copying build/lib/bcbio/data/umis/harvard-scrb-transform.json -> build/bdist.linux-armv7l/wheel/bcbio/data/umis copying build/lib/bcbio/data/umis/harvard-indrop-v2-transform.json -> build/bdist.linux-armv7l/wheel/bcbio/data/umis copying build/lib/bcbio/data/umis/harvard-indrop-v3-cb2.txt -> build/bdist.linux-armv7l/wheel/bcbio/data/umis copying build/lib/bcbio/data/umis/dropseq-transform.json -> build/bdist.linux-armv7l/wheel/bcbio/data/umis copying build/lib/bcbio/data/umis/harvard-scrb-cb1.txt -> build/bdist.linux-armv7l/wheel/bcbio/data/umis copying build/lib/bcbio/data/umis/surecell-cb1.txt -> build/bdist.linux-armv7l/wheel/bcbio/data/umis creating build/bdist.linux-armv7l/wheel/bcbio/srna copying build/lib/bcbio/srna/qc.py -> build/bdist.linux-armv7l/wheel/bcbio/srna copying build/lib/bcbio/srna/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/srna copying build/lib/bcbio/srna/sample.py -> build/bdist.linux-armv7l/wheel/bcbio/srna copying build/lib/bcbio/srna/mirdeep.py -> build/bdist.linux-armv7l/wheel/bcbio/srna copying build/lib/bcbio/srna/group.py -> build/bdist.linux-armv7l/wheel/bcbio/srna creating build/bdist.linux-armv7l/wheel/bcbio/rnaseq copying build/lib/bcbio/rnaseq/variation.py -> build/bdist.linux-armv7l/wheel/bcbio/rnaseq copying build/lib/bcbio/rnaseq/rsem.py -> build/bdist.linux-armv7l/wheel/bcbio/rnaseq copying build/lib/bcbio/rnaseq/sailfish.py -> build/bdist.linux-armv7l/wheel/bcbio/rnaseq copying build/lib/bcbio/rnaseq/cufflinks.py -> build/bdist.linux-armv7l/wheel/bcbio/rnaseq copying build/lib/bcbio/rnaseq/pizzly.py -> build/bdist.linux-armv7l/wheel/bcbio/rnaseq copying build/lib/bcbio/rnaseq/qc.py -> build/bdist.linux-armv7l/wheel/bcbio/rnaseq copying build/lib/bcbio/rnaseq/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/rnaseq copying build/lib/bcbio/rnaseq/spikein.py -> build/bdist.linux-armv7l/wheel/bcbio/rnaseq copying build/lib/bcbio/rnaseq/oncofuse.py -> build/bdist.linux-armv7l/wheel/bcbio/rnaseq copying build/lib/bcbio/rnaseq/count.py -> build/bdist.linux-armv7l/wheel/bcbio/rnaseq copying build/lib/bcbio/rnaseq/umi.py -> build/bdist.linux-armv7l/wheel/bcbio/rnaseq copying build/lib/bcbio/rnaseq/gtf.py -> build/bdist.linux-armv7l/wheel/bcbio/rnaseq copying build/lib/bcbio/rnaseq/cpat.py -> build/bdist.linux-armv7l/wheel/bcbio/rnaseq copying build/lib/bcbio/rnaseq/annotate_gtf.py -> build/bdist.linux-armv7l/wheel/bcbio/rnaseq copying build/lib/bcbio/rnaseq/salmon.py -> build/bdist.linux-armv7l/wheel/bcbio/rnaseq copying build/lib/bcbio/rnaseq/express.py -> build/bdist.linux-armv7l/wheel/bcbio/rnaseq copying build/lib/bcbio/rnaseq/rapmap.py -> build/bdist.linux-armv7l/wheel/bcbio/rnaseq copying build/lib/bcbio/rnaseq/kallisto.py -> build/bdist.linux-armv7l/wheel/bcbio/rnaseq copying build/lib/bcbio/rnaseq/featureCounts.py -> build/bdist.linux-armv7l/wheel/bcbio/rnaseq copying build/lib/bcbio/rnaseq/stringtie.py -> build/bdist.linux-armv7l/wheel/bcbio/rnaseq copying build/lib/bcbio/rnaseq/ericscript.py -> build/bdist.linux-armv7l/wheel/bcbio/rnaseq copying build/lib/bcbio/rnaseq/dexseq.py -> build/bdist.linux-armv7l/wheel/bcbio/rnaseq creating build/bdist.linux-armv7l/wheel/bcbio/ngsalign copying build/lib/bcbio/ngsalign/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/ngsalign copying build/lib/bcbio/ngsalign/novoalign.py -> build/bdist.linux-armv7l/wheel/bcbio/ngsalign copying build/lib/bcbio/ngsalign/alignprep.py -> build/bdist.linux-armv7l/wheel/bcbio/ngsalign copying build/lib/bcbio/ngsalign/bwa.py -> build/bdist.linux-armv7l/wheel/bcbio/ngsalign copying build/lib/bcbio/ngsalign/bowtie2.py -> build/bdist.linux-armv7l/wheel/bcbio/ngsalign copying build/lib/bcbio/ngsalign/bowtie.py -> build/bdist.linux-armv7l/wheel/bcbio/ngsalign copying build/lib/bcbio/ngsalign/postalign.py -> build/bdist.linux-armv7l/wheel/bcbio/ngsalign copying build/lib/bcbio/ngsalign/hisat2.py -> build/bdist.linux-armv7l/wheel/bcbio/ngsalign copying build/lib/bcbio/ngsalign/mosaik.py -> build/bdist.linux-armv7l/wheel/bcbio/ngsalign copying build/lib/bcbio/ngsalign/star.py -> build/bdist.linux-armv7l/wheel/bcbio/ngsalign copying build/lib/bcbio/ngsalign/tophat.py -> build/bdist.linux-armv7l/wheel/bcbio/ngsalign copying build/lib/bcbio/ngsalign/snap.py -> build/bdist.linux-armv7l/wheel/bcbio/ngsalign copying build/lib/bcbio/ngsalign/minimap2.py -> build/bdist.linux-armv7l/wheel/bcbio/ngsalign copying build/lib/bcbio/ngsalign/rtg.py -> build/bdist.linux-armv7l/wheel/bcbio/ngsalign creating build/bdist.linux-armv7l/wheel/bcbio/illumina copying build/lib/bcbio/illumina/transfer.py -> build/bdist.linux-armv7l/wheel/bcbio/illumina copying build/lib/bcbio/illumina/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/illumina copying build/lib/bcbio/illumina/machine.py -> build/bdist.linux-armv7l/wheel/bcbio/illumina copying build/lib/bcbio/illumina/flowcell.py -> build/bdist.linux-armv7l/wheel/bcbio/illumina copying build/lib/bcbio/illumina/demultiplex.py -> build/bdist.linux-armv7l/wheel/bcbio/illumina copying build/lib/bcbio/illumina/samplesheet.py -> build/bdist.linux-armv7l/wheel/bcbio/illumina copying build/lib/bcbio/utils.py -> build/bdist.linux-armv7l/wheel/bcbio creating build/bdist.linux-armv7l/wheel/bcbio/distributed copying build/lib/bcbio/distributed/split.py -> build/bdist.linux-armv7l/wheel/bcbio/distributed copying build/lib/bcbio/distributed/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/distributed copying build/lib/bcbio/distributed/clusterk.py -> build/bdist.linux-armv7l/wheel/bcbio/distributed copying build/lib/bcbio/distributed/transaction.py -> build/bdist.linux-armv7l/wheel/bcbio/distributed copying build/lib/bcbio/distributed/resources.py -> build/bdist.linux-armv7l/wheel/bcbio/distributed copying build/lib/bcbio/distributed/ipythontasks.py -> build/bdist.linux-armv7l/wheel/bcbio/distributed copying build/lib/bcbio/distributed/runfn.py -> build/bdist.linux-armv7l/wheel/bcbio/distributed copying build/lib/bcbio/distributed/objectstore.py -> build/bdist.linux-armv7l/wheel/bcbio/distributed copying build/lib/bcbio/distributed/ipython.py -> build/bdist.linux-armv7l/wheel/bcbio/distributed copying build/lib/bcbio/distributed/multi.py -> build/bdist.linux-armv7l/wheel/bcbio/distributed copying build/lib/bcbio/distributed/multitasks.py -> build/bdist.linux-armv7l/wheel/bcbio/distributed copying build/lib/bcbio/distributed/clargs.py -> build/bdist.linux-armv7l/wheel/bcbio/distributed copying build/lib/bcbio/distributed/prun.py -> build/bdist.linux-armv7l/wheel/bcbio/distributed creating build/bdist.linux-armv7l/wheel/bcbio/pipeline copying build/lib/bcbio/pipeline/genome.py -> build/bdist.linux-armv7l/wheel/bcbio/pipeline copying build/lib/bcbio/pipeline/variation.py -> build/bdist.linux-armv7l/wheel/bcbio/pipeline copying build/lib/bcbio/pipeline/main.py -> build/bdist.linux-armv7l/wheel/bcbio/pipeline copying build/lib/bcbio/pipeline/qcsummary.py -> build/bdist.linux-armv7l/wheel/bcbio/pipeline copying build/lib/bcbio/pipeline/archive.py -> build/bdist.linux-armv7l/wheel/bcbio/pipeline copying build/lib/bcbio/pipeline/shared.py -> build/bdist.linux-armv7l/wheel/bcbio/pipeline copying build/lib/bcbio/pipeline/rnaseq.py -> build/bdist.linux-armv7l/wheel/bcbio/pipeline copying build/lib/bcbio/pipeline/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/pipeline copying build/lib/bcbio/pipeline/sra.py -> build/bdist.linux-armv7l/wheel/bcbio/pipeline copying build/lib/bcbio/pipeline/tools.py -> build/bdist.linux-armv7l/wheel/bcbio/pipeline copying build/lib/bcbio/pipeline/region.py -> build/bdist.linux-armv7l/wheel/bcbio/pipeline copying build/lib/bcbio/pipeline/fastq.py -> build/bdist.linux-armv7l/wheel/bcbio/pipeline copying build/lib/bcbio/pipeline/merge.py -> build/bdist.linux-armv7l/wheel/bcbio/pipeline copying build/lib/bcbio/pipeline/sample.py -> build/bdist.linux-armv7l/wheel/bcbio/pipeline copying build/lib/bcbio/pipeline/run_info.py -> build/bdist.linux-armv7l/wheel/bcbio/pipeline copying build/lib/bcbio/pipeline/alignment.py -> build/bdist.linux-armv7l/wheel/bcbio/pipeline copying build/lib/bcbio/pipeline/version.py -> build/bdist.linux-armv7l/wheel/bcbio/pipeline copying build/lib/bcbio/pipeline/config_utils.py -> build/bdist.linux-armv7l/wheel/bcbio/pipeline creating build/bdist.linux-armv7l/wheel/bcbio/pipeline/disambiguate copying build/lib/bcbio/pipeline/disambiguate/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/pipeline/disambiguate copying build/lib/bcbio/pipeline/disambiguate/run.py -> build/bdist.linux-armv7l/wheel/bcbio/pipeline/disambiguate copying build/lib/bcbio/pipeline/cleanbam.py -> build/bdist.linux-armv7l/wheel/bcbio/pipeline copying build/lib/bcbio/pipeline/datadict.py -> build/bdist.linux-armv7l/wheel/bcbio/pipeline copying build/lib/bcbio/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio copying build/lib/bcbio/install.py -> build/bdist.linux-armv7l/wheel/bcbio creating build/bdist.linux-armv7l/wheel/bcbio/heterogeneity copying build/lib/bcbio/heterogeneity/bubbletree.py -> build/bdist.linux-armv7l/wheel/bcbio/heterogeneity copying build/lib/bcbio/heterogeneity/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/heterogeneity copying build/lib/bcbio/heterogeneity/phylowgs.py -> build/bdist.linux-armv7l/wheel/bcbio/heterogeneity copying build/lib/bcbio/heterogeneity/chromhacks.py -> build/bdist.linux-armv7l/wheel/bcbio/heterogeneity copying build/lib/bcbio/heterogeneity/theta.py -> build/bdist.linux-armv7l/wheel/bcbio/heterogeneity creating build/bdist.linux-armv7l/wheel/bcbio/broad copying build/lib/bcbio/broad/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/broad copying build/lib/bcbio/broad/metrics.py -> build/bdist.linux-armv7l/wheel/bcbio/broad copying build/lib/bcbio/broad/picardrun.py -> build/bdist.linux-armv7l/wheel/bcbio/broad creating build/bdist.linux-armv7l/wheel/bcbio/cwl copying build/lib/bcbio/cwl/main.py -> build/bdist.linux-armv7l/wheel/bcbio/cwl copying build/lib/bcbio/cwl/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/cwl copying build/lib/bcbio/cwl/inspect.py -> build/bdist.linux-armv7l/wheel/bcbio/cwl copying build/lib/bcbio/cwl/tool.py -> build/bdist.linux-armv7l/wheel/bcbio/cwl copying build/lib/bcbio/cwl/create.py -> build/bdist.linux-armv7l/wheel/bcbio/cwl copying build/lib/bcbio/cwl/workflow.py -> build/bdist.linux-armv7l/wheel/bcbio/cwl copying build/lib/bcbio/cwl/defs.py -> build/bdist.linux-armv7l/wheel/bcbio/cwl copying build/lib/bcbio/cwl/cwlutils.py -> build/bdist.linux-armv7l/wheel/bcbio/cwl creating build/bdist.linux-armv7l/wheel/bcbio/graph copying build/lib/bcbio/graph/graph.py -> build/bdist.linux-armv7l/wheel/bcbio/graph copying build/lib/bcbio/graph/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/graph copying build/lib/bcbio/graph/collectl.py -> build/bdist.linux-armv7l/wheel/bcbio/graph creating build/bdist.linux-armv7l/wheel/bcbio/structural copying build/lib/bcbio/structural/delly.py -> build/bdist.linux-armv7l/wheel/bcbio/structural copying build/lib/bcbio/structural/regions.py -> build/bdist.linux-armv7l/wheel/bcbio/structural copying build/lib/bcbio/structural/shared.py -> build/bdist.linux-armv7l/wheel/bcbio/structural copying build/lib/bcbio/structural/titancna.py -> build/bdist.linux-armv7l/wheel/bcbio/structural copying build/lib/bcbio/structural/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/structural copying build/lib/bcbio/structural/convert.py -> build/bdist.linux-armv7l/wheel/bcbio/structural copying build/lib/bcbio/structural/lumpy.py -> build/bdist.linux-armv7l/wheel/bcbio/structural copying build/lib/bcbio/structural/annotate.py -> build/bdist.linux-armv7l/wheel/bcbio/structural copying build/lib/bcbio/structural/cnvkit.py -> build/bdist.linux-armv7l/wheel/bcbio/structural copying build/lib/bcbio/structural/battenberg.py -> build/bdist.linux-armv7l/wheel/bcbio/structural copying build/lib/bcbio/structural/cn_mops.py -> build/bdist.linux-armv7l/wheel/bcbio/structural copying build/lib/bcbio/structural/pindel.py -> build/bdist.linux-armv7l/wheel/bcbio/structural copying build/lib/bcbio/structural/seq2c.py -> build/bdist.linux-armv7l/wheel/bcbio/structural copying build/lib/bcbio/structural/manta.py -> build/bdist.linux-armv7l/wheel/bcbio/structural copying build/lib/bcbio/structural/validate.py -> build/bdist.linux-armv7l/wheel/bcbio/structural copying build/lib/bcbio/structural/prioritize.py -> build/bdist.linux-armv7l/wheel/bcbio/structural copying build/lib/bcbio/structural/metasv.py -> build/bdist.linux-armv7l/wheel/bcbio/structural copying build/lib/bcbio/structural/gridss.py -> build/bdist.linux-armv7l/wheel/bcbio/structural copying build/lib/bcbio/structural/plot.py -> build/bdist.linux-armv7l/wheel/bcbio/structural copying build/lib/bcbio/structural/hydra.py -> build/bdist.linux-armv7l/wheel/bcbio/structural copying build/lib/bcbio/structural/wham.py -> build/bdist.linux-armv7l/wheel/bcbio/structural creating build/bdist.linux-armv7l/wheel/bcbio/provenance copying build/lib/bcbio/provenance/versioncheck.py -> build/bdist.linux-armv7l/wheel/bcbio/provenance copying build/lib/bcbio/provenance/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/provenance copying build/lib/bcbio/provenance/profile.py -> build/bdist.linux-armv7l/wheel/bcbio/provenance copying build/lib/bcbio/provenance/programs.py -> build/bdist.linux-armv7l/wheel/bcbio/provenance copying build/lib/bcbio/provenance/diagnostics.py -> build/bdist.linux-armv7l/wheel/bcbio/provenance copying build/lib/bcbio/provenance/do.py -> build/bdist.linux-armv7l/wheel/bcbio/provenance copying build/lib/bcbio/provenance/data.py -> build/bdist.linux-armv7l/wheel/bcbio/provenance copying build/lib/bcbio/provenance/system.py -> build/bdist.linux-armv7l/wheel/bcbio/provenance creating build/bdist.linux-armv7l/wheel/bcbio/picard copying build/lib/bcbio/picard/utils.py -> build/bdist.linux-armv7l/wheel/bcbio/picard copying build/lib/bcbio/picard/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/picard copying build/lib/bcbio/picard/metrics.py -> build/bdist.linux-armv7l/wheel/bcbio/picard creating build/bdist.linux-armv7l/wheel/bcbio/server copying build/lib/bcbio/server/main.py -> build/bdist.linux-armv7l/wheel/bcbio/server copying build/lib/bcbio/server/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/server copying build/lib/bcbio/server/run.py -> build/bdist.linux-armv7l/wheel/bcbio/server copying build/lib/bcbio/server/background.py -> build/bdist.linux-armv7l/wheel/bcbio/server creating build/bdist.linux-armv7l/wheel/bcbio/chipseq copying build/lib/bcbio/chipseq/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/chipseq copying build/lib/bcbio/chipseq/macs2.py -> build/bdist.linux-armv7l/wheel/bcbio/chipseq copying build/lib/bcbio/chipseq/peaks.py -> build/bdist.linux-armv7l/wheel/bcbio/chipseq creating build/bdist.linux-armv7l/wheel/bcbio/bam copying build/lib/bcbio/bam/ref.py -> build/bdist.linux-armv7l/wheel/bcbio/bam copying build/lib/bcbio/bam/cram.py -> build/bdist.linux-armv7l/wheel/bcbio/bam copying build/lib/bcbio/bam/fasta.py -> build/bdist.linux-armv7l/wheel/bcbio/bam copying build/lib/bcbio/bam/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/bam copying build/lib/bcbio/bam/callable.py -> build/bdist.linux-armv7l/wheel/bcbio/bam copying build/lib/bcbio/bam/coverage.py -> build/bdist.linux-armv7l/wheel/bcbio/bam copying build/lib/bcbio/bam/trim.py -> build/bdist.linux-armv7l/wheel/bcbio/bam copying build/lib/bcbio/bam/skewer.py -> build/bdist.linux-armv7l/wheel/bcbio/bam copying build/lib/bcbio/bam/fastq.py -> build/bdist.linux-armv7l/wheel/bcbio/bam copying build/lib/bcbio/bam/counts.py -> build/bdist.linux-armv7l/wheel/bcbio/bam copying build/lib/bcbio/bam/readstats.py -> build/bdist.linux-armv7l/wheel/bcbio/bam creating build/bdist.linux-armv7l/wheel/bcbio/workflow copying build/lib/bcbio/workflow/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/workflow copying build/lib/bcbio/workflow/xprize.py -> build/bdist.linux-armv7l/wheel/bcbio/workflow copying build/lib/bcbio/workflow/template.py -> build/bdist.linux-armv7l/wheel/bcbio/workflow copying build/lib/bcbio/workflow/stormseq.py -> build/bdist.linux-armv7l/wheel/bcbio/workflow creating build/bdist.linux-armv7l/wheel/bcbio/hmmer copying build/lib/bcbio/hmmer/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/hmmer copying build/lib/bcbio/hmmer/search.py -> build/bdist.linux-armv7l/wheel/bcbio/hmmer creating build/bdist.linux-armv7l/wheel/bcbio/bed copying build/lib/bcbio/bed/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/bed creating build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/deepvariant.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/realign.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/ploidy.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/vcfutils.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/qsnp.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/peddy.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/split.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/effects.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/population.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/coverage.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/scalpel.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/recalibrate.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/damage.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/cortex.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/sentieon.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/strelka2.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/vardict.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/gatkfilter.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/naming.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/mutect.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/ensemble.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/annotation.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/gatk.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/validate.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/varscan.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/prioritize.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/bamprep.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/mutect2.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/samtools.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/platypus.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/validateplot.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/multi.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/vfilter.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/joint.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/gatkjoint.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/genotype.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/normalize.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/bedutils.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/germline.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/vcfanno.py -> build/bdist.linux-armv7l/wheel/bcbio/variation copying build/lib/bcbio/variation/freebayes.py -> build/bdist.linux-armv7l/wheel/bcbio/variation creating build/bdist.linux-armv7l/wheel/bcbio/qc copying build/lib/bcbio/qc/fastqc.py -> build/bdist.linux-armv7l/wheel/bcbio/qc copying build/lib/bcbio/qc/srna.py -> build/bdist.linux-armv7l/wheel/bcbio/qc copying build/lib/bcbio/qc/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/qc copying build/lib/bcbio/qc/coverage.py -> build/bdist.linux-armv7l/wheel/bcbio/qc copying build/lib/bcbio/qc/kraken.py -> build/bdist.linux-armv7l/wheel/bcbio/qc copying build/lib/bcbio/qc/umi.py -> build/bdist.linux-armv7l/wheel/bcbio/qc copying build/lib/bcbio/qc/qsignature.py -> build/bdist.linux-armv7l/wheel/bcbio/qc copying build/lib/bcbio/qc/viral.py -> build/bdist.linux-armv7l/wheel/bcbio/qc copying build/lib/bcbio/qc/damage.py -> build/bdist.linux-armv7l/wheel/bcbio/qc copying build/lib/bcbio/qc/qualimap.py -> build/bdist.linux-armv7l/wheel/bcbio/qc copying build/lib/bcbio/qc/picard.py -> build/bdist.linux-armv7l/wheel/bcbio/qc copying build/lib/bcbio/qc/multiqc.py -> build/bdist.linux-armv7l/wheel/bcbio/qc copying build/lib/bcbio/qc/atropos.py -> build/bdist.linux-armv7l/wheel/bcbio/qc copying build/lib/bcbio/qc/preseq.py -> build/bdist.linux-armv7l/wheel/bcbio/qc copying build/lib/bcbio/qc/samtools.py -> build/bdist.linux-armv7l/wheel/bcbio/qc copying build/lib/bcbio/qc/variant.py -> build/bdist.linux-armv7l/wheel/bcbio/qc creating build/bdist.linux-armv7l/wheel/bcbio/log copying build/lib/bcbio/log/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/log copying build/lib/bcbio/log/logbook_zmqpush.py -> build/bdist.linux-armv7l/wheel/bcbio/log creating build/bdist.linux-armv7l/wheel/bcbio/galaxy copying build/lib/bcbio/galaxy/api.py -> build/bdist.linux-armv7l/wheel/bcbio/galaxy copying build/lib/bcbio/galaxy/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/galaxy copying build/lib/bcbio/galaxy/nglims.py -> build/bdist.linux-armv7l/wheel/bcbio/galaxy copying build/lib/bcbio/galaxy/loc.py -> build/bdist.linux-armv7l/wheel/bcbio/galaxy copying build/lib/bcbio/setpath.py -> build/bdist.linux-armv7l/wheel/bcbio creating build/bdist.linux-armv7l/wheel/bcbio/hla copying build/lib/bcbio/hla/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/hla copying build/lib/bcbio/hla/groups.py -> build/bdist.linux-armv7l/wheel/bcbio/hla copying build/lib/bcbio/hla/bwakit.py -> build/bdist.linux-armv7l/wheel/bcbio/hla copying build/lib/bcbio/hla/optitype.py -> build/bdist.linux-armv7l/wheel/bcbio/hla creating build/bdist.linux-armv7l/wheel/bcbio/upload copying build/lib/bcbio/upload/shared.py -> build/bdist.linux-armv7l/wheel/bcbio/upload copying build/lib/bcbio/upload/__init__.py -> build/bdist.linux-armv7l/wheel/bcbio/upload copying build/lib/bcbio/upload/s3.py -> build/bdist.linux-armv7l/wheel/bcbio/upload copying build/lib/bcbio/upload/filesystem.py -> build/bdist.linux-armv7l/wheel/bcbio/upload copying build/lib/bcbio/upload/irods.py -> build/bdist.linux-armv7l/wheel/bcbio/upload copying build/lib/bcbio/upload/galaxy.py -> build/bdist.linux-armv7l/wheel/bcbio/upload creating build/bdist.linux-armv7l/wheel/tests creating build/bdist.linux-armv7l/wheel/tests/unit creating build/bdist.linux-armv7l/wheel/tests/unit/rnaseq copying build/lib/tests/unit/rnaseq/__init__.py -> build/bdist.linux-armv7l/wheel/tests/unit/rnaseq copying build/lib/tests/unit/rnaseq/test_ericscript.py -> build/bdist.linux-armv7l/wheel/tests/unit/rnaseq creating build/bdist.linux-armv7l/wheel/tests/unit/ngsalign copying build/lib/tests/unit/ngsalign/__init__.py -> build/bdist.linux-armv7l/wheel/tests/unit/ngsalign creating build/bdist.linux-armv7l/wheel/tests/unit/distributed copying build/lib/tests/unit/distributed/test_transaction.py -> build/bdist.linux-armv7l/wheel/tests/unit/distributed copying build/lib/tests/unit/distributed/__init__.py -> build/bdist.linux-armv7l/wheel/tests/unit/distributed creating build/bdist.linux-armv7l/wheel/tests/unit/pipeline copying build/lib/tests/unit/pipeline/__init__.py -> build/bdist.linux-armv7l/wheel/tests/unit/pipeline copying build/lib/tests/unit/pipeline/test_rnaseq.py -> build/bdist.linux-armv7l/wheel/tests/unit/pipeline copying build/lib/tests/unit/pipeline/test_datadict.py -> build/bdist.linux-armv7l/wheel/tests/unit/pipeline copying build/lib/tests/unit/__init__.py -> build/bdist.linux-armv7l/wheel/tests/unit copying build/lib/tests/unit/test_alignprep.py -> build/bdist.linux-armv7l/wheel/tests/unit copying build/lib/tests/unit/conftest.py -> build/bdist.linux-armv7l/wheel/tests/unit copying build/lib/tests/unit/data.py -> build/bdist.linux-armv7l/wheel/tests/unit creating build/bdist.linux-armv7l/wheel/tests/unit/upload copying build/lib/tests/unit/upload/__init__.py -> build/bdist.linux-armv7l/wheel/tests/unit/upload copying build/lib/tests/unit/upload/test_upload.py -> build/bdist.linux-armv7l/wheel/tests/unit/upload creating build/bdist.linux-armv7l/wheel/tests/integration copying build/lib/tests/integration/test_pipeline.py -> build/bdist.linux-armv7l/wheel/tests/integration creating build/bdist.linux-armv7l/wheel/tests/integration/rnaseq copying build/lib/tests/integration/rnaseq/__init__.py -> build/bdist.linux-armv7l/wheel/tests/integration/rnaseq copying build/lib/tests/integration/rnaseq/test_ericscript.py -> build/bdist.linux-armv7l/wheel/tests/integration/rnaseq copying build/lib/tests/integration/test_S3_pipelines.py -> build/bdist.linux-armv7l/wheel/tests/integration copying build/lib/tests/integration/__init__.py -> build/bdist.linux-armv7l/wheel/tests/integration copying build/lib/tests/integration/test_automated_analysis.py -> build/bdist.linux-armv7l/wheel/tests/integration copying build/lib/tests/integration/test_SequencingDump.py -> build/bdist.linux-armv7l/wheel/tests/integration running install_egg_info Copying bcbio_nextgen.egg-info to build/bdist.linux-armv7l/wheel/bcbio_nextgen-1.0.8-py3.4.egg-info running install_scripts creating build/bdist.linux-armv7l/wheel/bcbio_nextgen-1.0.8.data creating build/bdist.linux-armv7l/wheel/bcbio_nextgen-1.0.8.data/scripts copying build/scripts-3.4/bcbio_setup_genome.py -> build/bdist.linux-armv7l/wheel/bcbio_nextgen-1.0.8.data/scripts copying build/scripts-3.4/bcbio_fastq_umi_prep.py -> build/bdist.linux-armv7l/wheel/bcbio_nextgen-1.0.8.data/scripts copying build/scripts-3.4/cwltool2wdl.py -> build/bdist.linux-armv7l/wheel/bcbio_nextgen-1.0.8.data/scripts copying build/scripts-3.4/bcbio_prepare_samples.py -> build/bdist.linux-armv7l/wheel/bcbio_nextgen-1.0.8.data/scripts copying build/scripts-3.4/bcbio_nextgen.py -> build/bdist.linux-armv7l/wheel/bcbio_nextgen-1.0.8.data/scripts changing mode of build/bdist.linux-armv7l/wheel/bcbio_nextgen-1.0.8.data/scripts/bcbio_setup_genome.py to 755 changing mode of build/bdist.linux-armv7l/wheel/bcbio_nextgen-1.0.8.data/scripts/bcbio_fastq_umi_prep.py to 755 changing mode of build/bdist.linux-armv7l/wheel/bcbio_nextgen-1.0.8.data/scripts/cwltool2wdl.py to 755 changing mode of build/bdist.linux-armv7l/wheel/bcbio_nextgen-1.0.8.data/scripts/bcbio_prepare_samples.py to 755 changing mode of build/bdist.linux-armv7l/wheel/bcbio_nextgen-1.0.8.data/scripts/bcbio_nextgen.py to 755 creating build/bdist.linux-armv7l/wheel/bcbio_nextgen-1.0.8.dist-info/WHEEL Running setup.py bdist_wheel for bcbio-nextgen: finished with status 'done' Stored in directory: /tmp/tmpm8dm0ofj Successfully built bcbio-nextgen Cleaning up... Removing source in /tmp/pip-build-ahoya8ym/bcbio-nextgen