2019-07-09T01:33:13 Created temporary directory: /tmp/pip-ephem-wheel-cache-zyegee46 2019-07-09T01:33:13 Created temporary directory: /tmp/pip-req-tracker-q1gt25io 2019-07-09T01:33:13 Created requirements tracker '/tmp/pip-req-tracker-q1gt25io' 2019-07-09T01:33:13 Created temporary directory: /tmp/pip-wheel-gau71ch8 2019-07-09T01:33:13 Collecting cwl-airflow==1.0.18 2019-07-09T01:33:13 1 location(s) to search for versions of cwl-airflow: 2019-07-09T01:33:13 * https://pypi.org/simple/cwl-airflow/ 2019-07-09T01:33:13 Getting page https://pypi.org/simple/cwl-airflow/ 2019-07-09T01:33:13 Analyzing links from page https://pypi.org/simple/cwl-airflow/ 2019-07-09T01:33:13 Found link https://files.pythonhosted.org/packages/24/3a/fd996cac3c572dee5df66046666754c82bf1e42df9b2bfea7eb7d7972042/cwl-airflow-1.0.4.tar.gz#sha256=5c37a58dbbc0ac9a0240d0a7ed84209c28b0aad0704f80700e38880230ae8cfa (from https://pypi.org/simple/cwl-airflow/), version: 1.0.4 2019-07-09T01:33:13 Found link https://files.pythonhosted.org/packages/44/10/0036788a97fe1d3c4adcca45d7c3bfac2cf20dac8d93fc95ce0daf3610e7/cwl-airflow-1.0.5.tar.gz#sha256=93f8c20f67dc179f83ba4b87fee04dad050540ec484b20d49a1ac34d33e58fbd (from https://pypi.org/simple/cwl-airflow/), version: 1.0.5 2019-07-09T01:33:13 Found link https://files.pythonhosted.org/packages/32/1a/78c47868795593c3c19ecd71a95871972cd517a9f0088f5363679816b1eb/cwl-airflow-1.0.6.tar.gz#sha256=f87c3d2d54f7e5224053b92a690bb29a07a64781579b6052ad6ae38ef47ce54e (from https://pypi.org/simple/cwl-airflow/), version: 1.0.6 2019-07-09T01:33:13 Found link https://files.pythonhosted.org/packages/b8/1f/12733cb716cd3c90bbd9df8fb44e023ed4f3e3a178dbd7e0df65dc6922ea/cwl-airflow-1.0.7.tar.gz#sha256=451dd94b672fefb0c0e63ff6d871e05a7ce9c9b56f068a55204cdbac9f48f899 (from https://pypi.org/simple/cwl-airflow/), version: 1.0.7 2019-07-09T01:33:13 Found link https://files.pythonhosted.org/packages/7e/0c/1781e6590de48e97698b06f58631173d2e78a4cc27fd98145ba555ed837c/cwl-airflow-1.0.8.tar.gz#sha256=09b6e22d69fceb72533c7758644ca2e7ddcf5b8b872b94033fcb2c8ed59a3878 (from https://pypi.org/simple/cwl-airflow/), version: 1.0.8 2019-07-09T01:33:13 Found link https://files.pythonhosted.org/packages/da/6a/ffca8de7238fdd94079adc16813b435157d360072d7d3f7887a0a608548d/cwl-airflow-1.0.9.tar.gz#sha256=09bfff50102b8f473734f89181b666e90e7238a2f3840a8acc2e25d5134fbe05 (from https://pypi.org/simple/cwl-airflow/), version: 1.0.9 2019-07-09T01:33:13 Found link https://files.pythonhosted.org/packages/05/e0/a1e145434164efde029cb235dbcb5d246b1c4ba48a1cd0fc6e840fdaa654/cwl-airflow-1.0.10.tar.gz#sha256=f8162f1ee12441522a68c469e1de7c957f16b537b8c8b8487b30b92e60f6221f (from https://pypi.org/simple/cwl-airflow/), version: 1.0.10 2019-07-09T01:33:13 Found link https://files.pythonhosted.org/packages/bc/5b/e31728963f0f40e3b19ca30f2b5a90dce2848b348a4ec1ae7d11174e3bdc/cwl-airflow-1.0.11.tar.gz#sha256=c42830f48217fb6e00400335be674a2db7ff2ae967fc821e4e1486faa0fee782 (from https://pypi.org/simple/cwl-airflow/), version: 1.0.11 2019-07-09T01:33:13 Found link https://files.pythonhosted.org/packages/41/38/195644769d008054da93d905c3617f75bf223dad2952f3dfaab614bba9c5/cwl-airflow-1.0.12.tar.gz#sha256=65d017c53f331f3a6841e89ec1f7b3f314cac2b97f6be4e6a24b13f8e7f036f8 (from https://pypi.org/simple/cwl-airflow/), version: 1.0.12 2019-07-09T01:33:13 Found link https://files.pythonhosted.org/packages/4b/0c/b900749b070f23d8783a2fd7b3a95e74a70a375b71936028f7da988615ce/cwl-airflow-1.0.13.tar.gz#sha256=1b30913c809c7f5497453d6d9395b28340bfae36bfb3c920de613e804fe6d5fe (from https://pypi.org/simple/cwl-airflow/), version: 1.0.13 2019-07-09T01:33:13 Found link https://files.pythonhosted.org/packages/51/91/3ca7f352ed4f8ea6984481f100d3a8d9a3c7d3cdc2e443d6946c96c10fe2/cwl-airflow-1.0.14.tar.gz#sha256=5e88dcc84692c032be11dccc601b0904d4a441a22ffd20cb8c3bb37e0028a830 (from https://pypi.org/simple/cwl-airflow/), version: 1.0.14 2019-07-09T01:33:13 Found link https://files.pythonhosted.org/packages/f0/cf/e533e3ddf7d75893d428326b405c29a31a62ba359e9e5b59981effbc6f17/cwl-airflow-1.0.15.tar.gz#sha256=8c6f616db1845b866a8ceaf95321b8c20e69632dc9b170c6adecafc98b730ec1 (from https://pypi.org/simple/cwl-airflow/), version: 1.0.15 2019-07-09T01:33:13 Found link https://files.pythonhosted.org/packages/a5/de/3452d930b34c68c493f66eb2c8544f32dcbec0c5547c8446203c55d4c863/cwl-airflow-1.0.16.tar.gz#sha256=a1e0b54c5d071f12048d249a57a40891a83b5a863d49a9aa0e7d3cb0585759b5 (from https://pypi.org/simple/cwl-airflow/), version: 1.0.16 2019-07-09T01:33:13 Found link https://files.pythonhosted.org/packages/ad/64/e8ff24364579b45a6e54a56b3e05f24bafa405ee3e5da8db15cbd70e1c4f/cwl-airflow-1.0.17.tar.gz#sha256=d353b4684b23dc5dd23f41789be40414ffe65935465a70973f9ae6f3953b9c8f (from https://pypi.org/simple/cwl-airflow/), version: 1.0.17 2019-07-09T01:33:13 Found link https://files.pythonhosted.org/packages/0f/78/b1438adcf337d86cc0e43ec21188587766a1e3237d73878d40a5b4f6c730/cwl-airflow-1.0.18.tar.gz#sha256=fb960ea67c1c0635350f84f83d56ca21066bac80dca90c06e1ce52221222ed92 (from https://pypi.org/simple/cwl-airflow/), version: 1.0.18 2019-07-09T01:33:13 Found link https://files.pythonhosted.org/packages/d4/a0/a1c7da38486639f28ff70d1d70fcc2e20f5c913ccbd72e1fe4500937e9d1/cwl-airflow-1.1.2.tar.gz#sha256=56fc073a5efaea664bd4e887c0ab66b34a8829228507554c817f05a075e1cf0c (from https://pypi.org/simple/cwl-airflow/), version: 1.1.2 2019-07-09T01:33:13 Using version 1.0.18 (newest of versions: 1.0.18) 2019-07-09T01:33:13 Created temporary directory: /tmp/pip-unpack-wm9ilw9t 2019-07-09T01:33:13 Downloading https://files.pythonhosted.org/packages/0f/78/b1438adcf337d86cc0e43ec21188587766a1e3237d73878d40a5b4f6c730/cwl-airflow-1.0.18.tar.gz (6.2MB) 2019-07-09T01:33:13 Downloading from URL https://files.pythonhosted.org/packages/0f/78/b1438adcf337d86cc0e43ec21188587766a1e3237d73878d40a5b4f6c730/cwl-airflow-1.0.18.tar.gz#sha256=fb960ea67c1c0635350f84f83d56ca21066bac80dca90c06e1ce52221222ed92 (from https://pypi.org/simple/cwl-airflow/) 2019-07-09T01:33:20 Added cwl-airflow==1.0.18 from https://files.pythonhosted.org/packages/0f/78/b1438adcf337d86cc0e43ec21188587766a1e3237d73878d40a5b4f6c730/cwl-airflow-1.0.18.tar.gz#sha256=fb960ea67c1c0635350f84f83d56ca21066bac80dca90c06e1ce52221222ed92 to build tracker '/tmp/pip-req-tracker-q1gt25io' 2019-07-09T01:33:20 Running setup.py (path:/tmp/pip-wheel-gau71ch8/cwl-airflow/setup.py) egg_info for package cwl-airflow 2019-07-09T01:33:20 Running command python setup.py egg_info 2019-07-09T01:33:22 fatal: Not a git repository (or any of the parent directories): .git 2019-07-09T01:33:22 fatal: Not a git repository (or any of the parent directories): .git 2019-07-09T01:33:22 running egg_info 2019-07-09T01:33:22 creating pip-egg-info/cwl_airflow.egg-info 2019-07-09T01:33:22 writing requirements to pip-egg-info/cwl_airflow.egg-info/requires.txt 2019-07-09T01:33:22 writing top-level names to pip-egg-info/cwl_airflow.egg-info/top_level.txt 2019-07-09T01:33:22 writing pip-egg-info/cwl_airflow.egg-info/PKG-INFO 2019-07-09T01:33:22 writing entry points to pip-egg-info/cwl_airflow.egg-info/entry_points.txt 2019-07-09T01:33:22 writing dependency_links to pip-egg-info/cwl_airflow.egg-info/dependency_links.txt 2019-07-09T01:33:22 writing manifest file 'pip-egg-info/cwl_airflow.egg-info/SOURCES.txt' 2019-07-09T01:33:22 reading manifest file 'pip-egg-info/cwl_airflow.egg-info/SOURCES.txt' 2019-07-09T01:33:22 reading manifest template 'MANIFEST.in' 2019-07-09T01:33:22 writing manifest file 'pip-egg-info/cwl_airflow.egg-info/SOURCES.txt' 2019-07-09T01:33:23 Source in /tmp/pip-wheel-gau71ch8/cwl-airflow has version 1.0.18, which satisfies requirement cwl-airflow==1.0.18 from https://files.pythonhosted.org/packages/0f/78/b1438adcf337d86cc0e43ec21188587766a1e3237d73878d40a5b4f6c730/cwl-airflow-1.0.18.tar.gz#sha256=fb960ea67c1c0635350f84f83d56ca21066bac80dca90c06e1ce52221222ed92 2019-07-09T01:33:23 Removed cwl-airflow==1.0.18 from https://files.pythonhosted.org/packages/0f/78/b1438adcf337d86cc0e43ec21188587766a1e3237d73878d40a5b4f6c730/cwl-airflow-1.0.18.tar.gz#sha256=fb960ea67c1c0635350f84f83d56ca21066bac80dca90c06e1ce52221222ed92 from build tracker '/tmp/pip-req-tracker-q1gt25io' 2019-07-09T01:33:23 Building wheels for collected packages: cwl-airflow 2019-07-09T01:33:23 Created temporary directory: /tmp/pip-wheel-krt3jr9n 2019-07-09T01:33:23 Building wheel for cwl-airflow (setup.py): started 2019-07-09T01:33:23 Destination directory: /tmp/pip-wheel-krt3jr9n 2019-07-09T01:33:23 Running command /usr/bin/python3 -u -c 'import setuptools, tokenize;__file__='"'"'/tmp/pip-wheel-gau71ch8/cwl-airflow/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/pip-wheel-krt3jr9n 2019-07-09T01:33:24 fatal: Not a git repository (or any of the parent directories): .git 2019-07-09T01:33:24 fatal: Not a git repository (or any of the parent directories): .git 2019-07-09T01:33:25 running bdist_wheel 2019-07-09T01:33:25 running build 2019-07-09T01:33:25 running build_py 2019-07-09T01:33:25 creating build 2019-07-09T01:33:25 creating build/lib 2019-07-09T01:33:25 creating build/lib/cwl_airflow 2019-07-09T01:33:25 copying cwl_airflow/create_dag.py -> build/lib/cwl_airflow 2019-07-09T01:33:25 copying cwl_airflow/__init__.py -> build/lib/cwl_airflow 2019-07-09T01:33:25 copying cwl_airflow/main.py -> build/lib/cwl_airflow 2019-07-09T01:33:25 creating build/lib/cwl_airflow/dag_components 2019-07-09T01:33:25 copying cwl_airflow/dag_components/__init__.py -> build/lib/cwl_airflow/dag_components 2019-07-09T01:33:25 copying cwl_airflow/dag_components/jobdispatcher.py -> build/lib/cwl_airflow/dag_components 2019-07-09T01:33:25 copying cwl_airflow/dag_components/cwlstepoperator.py -> build/lib/cwl_airflow/dag_components 2019-07-09T01:33:25 copying cwl_airflow/dag_components/cwldag.py -> build/lib/cwl_airflow/dag_components 2019-07-09T01:33:25 copying cwl_airflow/dag_components/jobcleanup.py -> build/lib/cwl_airflow/dag_components 2019-07-09T01:33:25 creating build/lib/cwl_airflow/utils 2019-07-09T01:33:25 copying cwl_airflow/utils/mute.py -> build/lib/cwl_airflow/utils 2019-07-09T01:33:25 copying cwl_airflow/utils/logger.py -> build/lib/cwl_airflow/utils 2019-07-09T01:33:25 copying cwl_airflow/utils/__init__.py -> build/lib/cwl_airflow/utils 2019-07-09T01:33:25 copying cwl_airflow/utils/utils.py -> build/lib/cwl_airflow/utils 2019-07-09T01:33:25 copying cwl_airflow/utils/func.py -> build/lib/cwl_airflow/utils 2019-07-09T01:33:25 running egg_info 2019-07-09T01:33:25 writing requirements to cwl_airflow.egg-info/requires.txt 2019-07-09T01:33:25 writing cwl_airflow.egg-info/PKG-INFO 2019-07-09T01:33:25 writing entry points to cwl_airflow.egg-info/entry_points.txt 2019-07-09T01:33:25 writing dependency_links to cwl_airflow.egg-info/dependency_links.txt 2019-07-09T01:33:25 writing top-level names to cwl_airflow.egg-info/top_level.txt 2019-07-09T01:33:25 reading manifest file 'cwl_airflow.egg-info/SOURCES.txt' 2019-07-09T01:33:25 reading manifest template 'MANIFEST.in' 2019-07-09T01:33:25 writing manifest file 'cwl_airflow.egg-info/SOURCES.txt' 2019-07-09T01:33:25 copying cwl_airflow/git_version -> build/lib/cwl_airflow 2019-07-09T01:33:25 creating build/lib/cwl_airflow/tests 2019-07-09T01:33:25 creating build/lib/cwl_airflow/tests/cwl 2019-07-09T01:33:25 creating build/lib/cwl_airflow/tests/cwl/subworkflows 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/subworkflows/bam-bedgraph-bigwig.cwl -> build/lib/cwl_airflow/tests/cwl/subworkflows 2019-07-09T01:33:25 creating build/lib/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/tools/atdp.cwl -> build/lib/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/tools/bedtools-genomecov.cwl -> build/lib/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/tools/bowtie-alignreads.cwl -> build/lib/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/tools/custom-bash.cwl -> build/lib/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/tools/extract-fastq.cwl -> build/lib/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/tools/fastqc-results-trigger.cwl -> build/lib/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/tools/fastqc.cwl -> build/lib/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/tools/fastx-quality-stats.cwl -> build/lib/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/tools/get-file-by-name.cwl -> build/lib/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/tools/iaintersect.cwl -> build/lib/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/tools/linux-sort.cwl -> build/lib/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/tools/macs2-callpeak-biowardrobe-only.cwl -> build/lib/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/tools/makegff.cwl -> build/lib/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/tools/python-get-stat-chipseq.cwl -> build/lib/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/tools/python-make-biowardrobe-isoforms.cwl -> build/lib/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/tools/rename.cwl -> build/lib/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/tools/rose.cwl -> build/lib/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/tools/rsem-calculate-expression.cwl -> build/lib/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/tools/samtools-rmdup.cwl -> build/lib/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/tools/samtools-sort-index.cwl -> build/lib/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/tools/trimmomatic.cwl -> build/lib/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/tools/ucsc-bedgraphtobigwig.cwl -> build/lib/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/tools/ucsc-bedtobigbed.cwl -> build/lib/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:25 creating build/lib/cwl_airflow/tests/cwl/workflows 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/workflows/chipseq-se.cwl -> build/lib/cwl_airflow/tests/cwl/workflows 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/workflows/super-enhancer.cwl -> build/lib/cwl_airflow/tests/cwl/workflows 2019-07-09T01:33:25 copying cwl_airflow/tests/cwl/workflows/xenbase-rnaseq-se.cwl -> build/lib/cwl_airflow/tests/cwl/workflows 2019-07-09T01:33:25 creating build/lib/cwl_airflow/tests/data 2019-07-09T01:33:25 copying cwl_airflow/tests/data/TruSeq3-SE.fa -> build/lib/cwl_airflow/tests/data 2019-07-09T01:33:25 copying cwl_airflow/tests/data/chr4_100_mapped_reads.Aligned.out.bam -> build/lib/cwl_airflow/tests/data 2019-07-09T01:33:25 copying cwl_airflow/tests/data/chr4_100_mapped_reads.Aligned.out.bam.bai -> build/lib/cwl_airflow/tests/data 2019-07-09T01:33:25 copying cwl_airflow/tests/data/chr4_100_mapped_reads.Aligned.out_macs_peaks_iaintersect.tsv -> build/lib/cwl_airflow/tests/data 2019-07-09T01:33:25 copying cwl_airflow/tests/data/chrNameLength.txt -> build/lib/cwl_airflow/tests/data 2019-07-09T01:33:25 copying cwl_airflow/tests/data/dm3_chr4.tsv -> build/lib/cwl_airflow/tests/data 2019-07-09T01:33:25 copying cwl_airflow/tests/data/upstream.fastq -> build/lib/cwl_airflow/tests/data 2019-07-09T01:33:26 creating build/lib/cwl_airflow/tests/data/bowtie_dm3_chr4 2019-07-09T01:33:26 copying cwl_airflow/tests/data/bowtie_dm3_chr4/bowtie-build.json -> build/lib/cwl_airflow/tests/data/bowtie_dm3_chr4 2019-07-09T01:33:26 copying cwl_airflow/tests/data/bowtie_dm3_chr4/dm3_chr4.1.ebwt -> build/lib/cwl_airflow/tests/data/bowtie_dm3_chr4 2019-07-09T01:33:26 copying cwl_airflow/tests/data/bowtie_dm3_chr4/dm3_chr4.2.ebwt -> build/lib/cwl_airflow/tests/data/bowtie_dm3_chr4 2019-07-09T01:33:26 copying cwl_airflow/tests/data/bowtie_dm3_chr4/dm3_chr4.3.ebwt -> build/lib/cwl_airflow/tests/data/bowtie_dm3_chr4 2019-07-09T01:33:26 copying cwl_airflow/tests/data/bowtie_dm3_chr4/dm3_chr4.4.ebwt -> build/lib/cwl_airflow/tests/data/bowtie_dm3_chr4 2019-07-09T01:33:26 copying cwl_airflow/tests/data/bowtie_dm3_chr4/dm3_chr4.rev.1.ebwt -> build/lib/cwl_airflow/tests/data/bowtie_dm3_chr4 2019-07-09T01:33:26 copying cwl_airflow/tests/data/bowtie_dm3_chr4/dm3_chr4.rev.2.ebwt -> build/lib/cwl_airflow/tests/data/bowtie_dm3_chr4 2019-07-09T01:33:26 creating build/lib/cwl_airflow/tests/data/bowtie_dm3_ribo 2019-07-09T01:33:26 copying cwl_airflow/tests/data/bowtie_dm3_ribo/dm3_chr4.1.ebwt -> build/lib/cwl_airflow/tests/data/bowtie_dm3_ribo 2019-07-09T01:33:27 copying cwl_airflow/tests/data/bowtie_dm3_ribo/dm3_chr4.2.ebwt -> build/lib/cwl_airflow/tests/data/bowtie_dm3_ribo 2019-07-09T01:33:27 copying cwl_airflow/tests/data/bowtie_dm3_ribo/dm3_chr4.3.ebwt -> build/lib/cwl_airflow/tests/data/bowtie_dm3_ribo 2019-07-09T01:33:27 copying cwl_airflow/tests/data/bowtie_dm3_ribo/dm3_chr4.4.ebwt -> build/lib/cwl_airflow/tests/data/bowtie_dm3_ribo 2019-07-09T01:33:27 copying cwl_airflow/tests/data/bowtie_dm3_ribo/dm3_chr4.log -> build/lib/cwl_airflow/tests/data/bowtie_dm3_ribo 2019-07-09T01:33:27 copying cwl_airflow/tests/data/bowtie_dm3_ribo/dm3_chr4.rev.1.ebwt -> build/lib/cwl_airflow/tests/data/bowtie_dm3_ribo 2019-07-09T01:33:27 copying cwl_airflow/tests/data/bowtie_dm3_ribo/dm3_chr4.rev.2.ebwt -> build/lib/cwl_airflow/tests/data/bowtie_dm3_ribo 2019-07-09T01:33:27 creating build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:27 copying cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.1.bt2 -> build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:28 copying cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.2.bt2 -> build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:28 copying cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.3.bt2 -> build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:28 copying cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.4.bt2 -> build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:28 copying cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.chrlist -> build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:28 copying cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.grp -> build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:28 copying cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.idx.fa -> build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:28 copying cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.n2g.idx.fa -> build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:28 copying cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.rev.1.bt2 -> build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:29 copying cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.rev.2.bt2 -> build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:29 copying cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.seq -> build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:29 copying cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.ti -> build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:29 copying cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.transcripts.fa -> build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:29 creating build/lib/cwl_airflow/tests/job 2019-07-09T01:33:29 copying cwl_airflow/tests/job/chipseq-se.json -> build/lib/cwl_airflow/tests/job 2019-07-09T01:33:29 copying cwl_airflow/tests/job/super-enhancer.json -> build/lib/cwl_airflow/tests/job 2019-07-09T01:33:29 copying cwl_airflow/tests/job/xenbase-rnaseq-se.json -> build/lib/cwl_airflow/tests/job 2019-07-09T01:33:29 installing to build/bdist.linux-armv7l/wheel 2019-07-09T01:33:29 running install 2019-07-09T01:33:29 running install_lib 2019-07-09T01:33:29 creating build/bdist.linux-armv7l 2019-07-09T01:33:29 creating build/bdist.linux-armv7l/wheel 2019-07-09T01:33:29 creating build/bdist.linux-armv7l/wheel/cwl_airflow 2019-07-09T01:33:29 copying build/lib/cwl_airflow/git_version -> build/bdist.linux-armv7l/wheel/cwl_airflow 2019-07-09T01:33:29 copying build/lib/cwl_airflow/create_dag.py -> build/bdist.linux-armv7l/wheel/cwl_airflow 2019-07-09T01:33:29 copying build/lib/cwl_airflow/__init__.py -> build/bdist.linux-armv7l/wheel/cwl_airflow 2019-07-09T01:33:29 copying build/lib/cwl_airflow/main.py -> build/bdist.linux-armv7l/wheel/cwl_airflow 2019-07-09T01:33:29 creating build/bdist.linux-armv7l/wheel/cwl_airflow/dag_components 2019-07-09T01:33:29 copying build/lib/cwl_airflow/dag_components/__init__.py -> build/bdist.linux-armv7l/wheel/cwl_airflow/dag_components 2019-07-09T01:33:29 copying build/lib/cwl_airflow/dag_components/jobdispatcher.py -> build/bdist.linux-armv7l/wheel/cwl_airflow/dag_components 2019-07-09T01:33:29 copying build/lib/cwl_airflow/dag_components/cwlstepoperator.py -> build/bdist.linux-armv7l/wheel/cwl_airflow/dag_components 2019-07-09T01:33:29 copying build/lib/cwl_airflow/dag_components/cwldag.py -> build/bdist.linux-armv7l/wheel/cwl_airflow/dag_components 2019-07-09T01:33:29 copying build/lib/cwl_airflow/dag_components/jobcleanup.py -> build/bdist.linux-armv7l/wheel/cwl_airflow/dag_components 2019-07-09T01:33:29 creating build/bdist.linux-armv7l/wheel/cwl_airflow/utils 2019-07-09T01:33:29 copying build/lib/cwl_airflow/utils/mute.py -> build/bdist.linux-armv7l/wheel/cwl_airflow/utils 2019-07-09T01:33:29 copying build/lib/cwl_airflow/utils/logger.py -> build/bdist.linux-armv7l/wheel/cwl_airflow/utils 2019-07-09T01:33:29 copying build/lib/cwl_airflow/utils/__init__.py -> build/bdist.linux-armv7l/wheel/cwl_airflow/utils 2019-07-09T01:33:29 copying build/lib/cwl_airflow/utils/utils.py -> build/bdist.linux-armv7l/wheel/cwl_airflow/utils 2019-07-09T01:33:29 copying build/lib/cwl_airflow/utils/func.py -> build/bdist.linux-armv7l/wheel/cwl_airflow/utils 2019-07-09T01:33:29 creating build/bdist.linux-armv7l/wheel/cwl_airflow/tests 2019-07-09T01:33:29 creating build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data 2019-07-09T01:33:29 creating build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:29 copying build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.1.bt2 -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:29 copying build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.rev.2.bt2 -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:29 copying build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.ti -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:29 copying build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.3.bt2 -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:29 copying build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.chrlist -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:29 copying build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.seq -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:30 copying build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.rev.1.bt2 -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:30 copying build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.transcripts.fa -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:30 copying build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.n2g.idx.fa -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:30 copying build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.grp -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:30 copying build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.idx.fa -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:30 copying build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.2.bt2 -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:31 copying build/lib/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4/dm3_chr4.4.bt2 -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/rsem_bowtie2_dm3_chr4 2019-07-09T01:33:31 copying build/lib/cwl_airflow/tests/data/chrNameLength.txt -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data 2019-07-09T01:33:31 creating build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/bowtie_dm3_chr4 2019-07-09T01:33:31 copying build/lib/cwl_airflow/tests/data/bowtie_dm3_chr4/dm3_chr4.rev.1.ebwt -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/bowtie_dm3_chr4 2019-07-09T01:33:31 copying build/lib/cwl_airflow/tests/data/bowtie_dm3_chr4/dm3_chr4.rev.2.ebwt -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/bowtie_dm3_chr4 2019-07-09T01:33:31 copying build/lib/cwl_airflow/tests/data/bowtie_dm3_chr4/dm3_chr4.2.ebwt -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/bowtie_dm3_chr4 2019-07-09T01:33:31 copying build/lib/cwl_airflow/tests/data/bowtie_dm3_chr4/dm3_chr4.1.ebwt -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/bowtie_dm3_chr4 2019-07-09T01:33:31 copying build/lib/cwl_airflow/tests/data/bowtie_dm3_chr4/dm3_chr4.3.ebwt -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/bowtie_dm3_chr4 2019-07-09T01:33:31 copying build/lib/cwl_airflow/tests/data/bowtie_dm3_chr4/bowtie-build.json -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/bowtie_dm3_chr4 2019-07-09T01:33:31 copying build/lib/cwl_airflow/tests/data/bowtie_dm3_chr4/dm3_chr4.4.ebwt -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/bowtie_dm3_chr4 2019-07-09T01:33:31 copying build/lib/cwl_airflow/tests/data/chr4_100_mapped_reads.Aligned.out_macs_peaks_iaintersect.tsv -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data 2019-07-09T01:33:31 copying build/lib/cwl_airflow/tests/data/chr4_100_mapped_reads.Aligned.out.bam.bai -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data 2019-07-09T01:33:31 copying build/lib/cwl_airflow/tests/data/chr4_100_mapped_reads.Aligned.out.bam -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/data/dm3_chr4.tsv -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/data/upstream.fastq -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data 2019-07-09T01:33:32 creating build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/bowtie_dm3_ribo 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/data/bowtie_dm3_ribo/dm3_chr4.log -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/bowtie_dm3_ribo 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/data/bowtie_dm3_ribo/dm3_chr4.rev.1.ebwt -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/bowtie_dm3_ribo 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/data/bowtie_dm3_ribo/dm3_chr4.rev.2.ebwt -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/bowtie_dm3_ribo 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/data/bowtie_dm3_ribo/dm3_chr4.2.ebwt -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/bowtie_dm3_ribo 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/data/bowtie_dm3_ribo/dm3_chr4.1.ebwt -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/bowtie_dm3_ribo 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/data/bowtie_dm3_ribo/dm3_chr4.3.ebwt -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/bowtie_dm3_ribo 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/data/bowtie_dm3_ribo/dm3_chr4.4.ebwt -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data/bowtie_dm3_ribo 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/data/TruSeq3-SE.fa -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/data 2019-07-09T01:33:32 creating build/bdist.linux-armv7l/wheel/cwl_airflow/tests/job 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/job/chipseq-se.json -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/job 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/job/super-enhancer.json -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/job 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/job/xenbase-rnaseq-se.json -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/job 2019-07-09T01:33:32 creating build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl 2019-07-09T01:33:32 creating build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/workflows 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/cwl/workflows/super-enhancer.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/workflows 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/cwl/workflows/xenbase-rnaseq-se.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/workflows 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/cwl/workflows/chipseq-se.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/workflows 2019-07-09T01:33:32 creating build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/subworkflows 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/cwl/subworkflows/bam-bedgraph-bigwig.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/subworkflows 2019-07-09T01:33:32 creating build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/cwl/tools/python-make-biowardrobe-isoforms.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/cwl/tools/python-get-stat-chipseq.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/cwl/tools/rsem-calculate-expression.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/cwl/tools/custom-bash.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/cwl/tools/atdp.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/cwl/tools/rose.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/cwl/tools/get-file-by-name.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/cwl/tools/rename.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/cwl/tools/bedtools-genomecov.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/cwl/tools/iaintersect.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/cwl/tools/fastqc-results-trigger.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/cwl/tools/samtools-sort-index.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/cwl/tools/bowtie-alignreads.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:32 copying build/lib/cwl_airflow/tests/cwl/tools/macs2-callpeak-biowardrobe-only.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:33 copying build/lib/cwl_airflow/tests/cwl/tools/linux-sort.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:33 copying build/lib/cwl_airflow/tests/cwl/tools/fastx-quality-stats.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:33 copying build/lib/cwl_airflow/tests/cwl/tools/ucsc-bedtobigbed.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:33 copying build/lib/cwl_airflow/tests/cwl/tools/extract-fastq.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:33 copying build/lib/cwl_airflow/tests/cwl/tools/fastqc.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:33 copying build/lib/cwl_airflow/tests/cwl/tools/makegff.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:33 copying build/lib/cwl_airflow/tests/cwl/tools/ucsc-bedgraphtobigwig.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:33 copying build/lib/cwl_airflow/tests/cwl/tools/trimmomatic.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:33 copying build/lib/cwl_airflow/tests/cwl/tools/samtools-rmdup.cwl -> build/bdist.linux-armv7l/wheel/cwl_airflow/tests/cwl/tools 2019-07-09T01:33:33 running install_egg_info 2019-07-09T01:33:33 Copying cwl_airflow.egg-info to build/bdist.linux-armv7l/wheel/cwl_airflow-1.0.18-py3.5.egg-info 2019-07-09T01:33:33 running install_scripts 2019-07-09T01:33:34 creating build/bdist.linux-armv7l/wheel/cwl_airflow-1.0.18.dist-info/WHEEL 2019-07-09T01:33:45 Building wheel for cwl-airflow (setup.py): finished with status 'done' 2019-07-09T01:33:45 Stored in directory: /tmp/tmpmavz3gby 2019-07-09T01:33:45 Successfully built cwl-airflow 2019-07-09T01:33:45 Cleaning up... 2019-07-09T01:33:45 Removing source in /tmp/pip-wheel-gau71ch8/cwl-airflow 2019-07-09T01:33:45 Removed build tracker '/tmp/pip-req-tracker-q1gt25io'