2020-07-29T19:06:29,582 Created temporary directory: /tmp/pip-ephem-wheel-cache-68i3k4va
2020-07-29T19:06:29,586 Created temporary directory: /tmp/pip-req-tracker-ee_vhynz
2020-07-29T19:06:29,586 Initialized build tracking at /tmp/pip-req-tracker-ee_vhynz
2020-07-29T19:06:29,588 Created build tracker: /tmp/pip-req-tracker-ee_vhynz
2020-07-29T19:06:29,588 Entered build tracker: /tmp/pip-req-tracker-ee_vhynz
2020-07-29T19:06:29,590 Created temporary directory: /tmp/pip-wheel-ycm99vf5
2020-07-29T19:06:29,603 1 location(s) to search for versions of kneaddata:
2020-07-29T19:06:29,603 * https://pypi.org/simple/kneaddata/
2020-07-29T19:06:29,604 Fetching project page and analyzing links: https://pypi.org/simple/kneaddata/
2020-07-29T19:06:29,605 Getting page https://pypi.org/simple/kneaddata/
2020-07-29T19:06:29,609 Found index url https://pypi.org/simple
2020-07-29T19:06:29,899   Found link https://files.pythonhosted.org/packages/91/19/62d9ecf0db18cd94089bc4115fa1b2cb4c3ffc79c652385e4c3f7e03ceef/kneaddata-0.5.2.tar.gz#sha256=eb786a31e1245065573b4042bb36c7f2498c75d4cde2361a168236501be2e756 (from https://pypi.org/simple/kneaddata/), version: 0.5.2
2020-07-29T19:06:29,900   Found link https://files.pythonhosted.org/packages/6d/50/dd20a862b2532a476b4837a2b1fe4f9e8131cf554751adb6fd7186ee33e3/kneaddata-0.5.4.tar.gz#sha256=c76940de21d3696a6113c51307322c0ff2eadebd62dc980a9923b49d963c26a3 (from https://pypi.org/simple/kneaddata/), version: 0.5.4
2020-07-29T19:06:29,901   Found link https://files.pythonhosted.org/packages/f8/6a/3c8f200d3088c5bc0dd2c85b74d5199e3ca1f2fb7d8baae44708f5b1b928/kneaddata-0.6.1.tar.gz#sha256=46540a22bebc84919a71138c419c69f68e9f5e35404587a2e31a3a3e53c66077 (from https://pypi.org/simple/kneaddata/), version: 0.6.1
2020-07-29T19:06:29,902   Found link https://files.pythonhosted.org/packages/40/31/eeace9b4a9e40060da156a930043c0fc32ed454381cef39e8e3176aced48/kneaddata-0.7.2.tar.gz#sha256=9415104fa97982e1b547e97a8a297a57031d37b4c5d9e2b2f269023244a8caed (from https://pypi.org/simple/kneaddata/), version: 0.7.2
2020-07-29T19:06:29,903   Found link https://files.pythonhosted.org/packages/a4/6a/4176eee7a83b80ac12ca6727df6cb9dd3fec2051cca8a707ccbebc5962d3/kneaddata-0.7.3.tar.gz#sha256=a0d6c0ffabcf2e01feb5dbb66ffb12bc895cbffe1ecd13055b73fab08f850676 (from https://pypi.org/simple/kneaddata/), version: 0.7.3
2020-07-29T19:06:29,903   Found link https://files.pythonhosted.org/packages/11/2c/cd13c0bf0fa2b7906ac4d7004d2f6965e24253f416fa568bd8971562feca/kneaddata-0.7.5.tar.gz#sha256=52a255fa23a885e76d19e646ca4d7777925c6d1934883e560077a12166d1ce44 (from https://pypi.org/simple/kneaddata/), version: 0.7.5
2020-07-29T19:06:29,904   Found link https://files.pythonhosted.org/packages/c4/19/aa5f38b94b7d6bc86f6ad0352a84ce1bc77ebdbd81fcce8d01eecaac398f/kneaddata-0.7.6.tar.gz#sha256=cb2c0ad51739ae1146d44bb03f1a77c36d1a58656bfb9e5fcd8ab81dc8f81a27 (from https://pypi.org/simple/kneaddata/), version: 0.7.6
2020-07-29T19:06:29,905   Found link https://files.pythonhosted.org/packages/97/18/94837e3387b344d089fbe29b009bc199ac9a9e915d31ed63927ed7465f1c/kneaddata-0.7.8.1.tar.gz#sha256=28cdb476c89eed8b304582e2c3f6f646b63fe1b34b8a76da35d7fe5059daaf3b (from https://pypi.org/simple/kneaddata/), version: 0.7.8.1
2020-07-29T19:06:29,905   Found link https://files.pythonhosted.org/packages/ae/d7/e5ba98f255eb5f11b0b4b7b789191e44d582f95d3e705d30099a895ad3e6/kneaddata-0.7.9.tar.gz#sha256=007087e6db838a6fb29fe429fe5e20a554e46f0dde6cd5cff3c7b9269b38b897 (from https://pypi.org/simple/kneaddata/), version: 0.7.9
2020-07-29T19:06:29,906   Found link https://files.pythonhosted.org/packages/42/d3/ed2ec7741a8b33fb490bfd164f7a13f108e64d2d2e2cb4b2cedff24a5734/kneaddata-0.7.10.tar.gz#sha256=605678bbfb9683a0c05bd10c06c3541c4c86853674f101c0100b7aa22fa1a868 (from https://pypi.org/simple/kneaddata/), version: 0.7.10
2020-07-29T19:06:29,918 Given no hashes to check 1 links for project 'kneaddata': discarding no candidates
2020-07-29T19:06:29,919 Using version 0.7.10 (newest of versions: 0.7.10)
2020-07-29T19:06:29,925 Collecting kneaddata==0.7.10
2020-07-29T19:06:29,929   Created temporary directory: /tmp/pip-unpack-3m338q1x
2020-07-29T19:06:30,178   Downloading kneaddata-0.7.10.tar.gz (651 kB)
2020-07-29T19:06:31,880   Added kneaddata==0.7.10 from https://files.pythonhosted.org/packages/42/d3/ed2ec7741a8b33fb490bfd164f7a13f108e64d2d2e2cb4b2cedff24a5734/kneaddata-0.7.10.tar.gz#sha256=605678bbfb9683a0c05bd10c06c3541c4c86853674f101c0100b7aa22fa1a868 to build tracker '/tmp/pip-req-tracker-ee_vhynz'
2020-07-29T19:06:31,883     Running setup.py (path:/tmp/pip-wheel-ycm99vf5/kneaddata/setup.py) egg_info for package kneaddata
2020-07-29T19:06:31,886     Created temporary directory: /tmp/pip-pip-egg-info-akiupoh1
2020-07-29T19:06:31,887     Running command python setup.py egg_info
2020-07-29T19:06:34,498     Downloading https://raw.githubusercontent.com/timflutre/trimmomatic/master/adapters/TruSeq2-PE.fa
2020-07-29T19:06:34,499     Downloading file of size: 0.00 MB

2020-07-29T19:06:34,500     0.01 MB 1519.85 %   5.43 MB/sec  0 min -0 sec         
2020-07-29T19:06:34,500     Downloading https://raw.githubusercontent.com/timflutre/trimmomatic/master/adapters/TruSeq2-SE.fa
2020-07-29T19:06:34,500     Downloading file of size: 0.00 MB

2020-07-29T19:06:34,501     0.01 MB 5728.67 %   5.90 MB/sec  0 min -0 sec         
2020-07-29T19:06:34,501     Downloading https://raw.githubusercontent.com/timflutre/trimmomatic/master/adapters/TruSeq3-PE.fa
2020-07-29T19:06:34,502     Downloading file of size: 0.00 MB

2020-07-29T19:06:34,503     0.01 MB 8808.60 %   6.45 MB/sec  0 min -0 sec         
2020-07-29T19:06:34,503     Downloading https://raw.githubusercontent.com/timflutre/trimmomatic/master/adapters/TruSeq3-SE.fa
2020-07-29T19:06:34,504     Downloading file of size: 0.00 MB

2020-07-29T19:06:34,505     0.01 MB 6884.03 %   6.45 MB/sec  0 min -0 sec         
2020-07-29T19:06:34,505     Downloading https://raw.githubusercontent.com/timflutre/trimmomatic/master/adapters/NexteraPE-PE.fa
2020-07-29T19:06:34,505     Downloading file of size: 0.00 MB

2020-07-29T19:06:34,518     0.01 MB 3427.62 %   6.50 MB/sec  0 min -0 sec         
2020-07-29T19:06:34,518     running egg_info
2020-07-29T19:06:34,523     creating /tmp/pip-pip-egg-info-akiupoh1/kneaddata.egg-info
2020-07-29T19:06:34,526     writing /tmp/pip-pip-egg-info-akiupoh1/kneaddata.egg-info/PKG-INFO
2020-07-29T19:06:34,530     writing top-level names to /tmp/pip-pip-egg-info-akiupoh1/kneaddata.egg-info/top_level.txt
2020-07-29T19:06:34,532     writing entry points to /tmp/pip-pip-egg-info-akiupoh1/kneaddata.egg-info/entry_points.txt
2020-07-29T19:06:34,535     writing dependency_links to /tmp/pip-pip-egg-info-akiupoh1/kneaddata.egg-info/dependency_links.txt
2020-07-29T19:06:34,537     writing manifest file '/tmp/pip-pip-egg-info-akiupoh1/kneaddata.egg-info/SOURCES.txt'
2020-07-29T19:06:34,848     reading manifest file '/tmp/pip-pip-egg-info-akiupoh1/kneaddata.egg-info/SOURCES.txt'
2020-07-29T19:06:34,850     reading manifest template 'MANIFEST.in'
2020-07-29T19:06:34,864     writing manifest file '/tmp/pip-pip-egg-info-akiupoh1/kneaddata.egg-info/SOURCES.txt'
2020-07-29T19:06:35,003   Source in /tmp/pip-wheel-ycm99vf5/kneaddata has version 0.7.10, which satisfies requirement kneaddata==0.7.10 from https://files.pythonhosted.org/packages/42/d3/ed2ec7741a8b33fb490bfd164f7a13f108e64d2d2e2cb4b2cedff24a5734/kneaddata-0.7.10.tar.gz#sha256=605678bbfb9683a0c05bd10c06c3541c4c86853674f101c0100b7aa22fa1a868
2020-07-29T19:06:35,005   Removed kneaddata==0.7.10 from https://files.pythonhosted.org/packages/42/d3/ed2ec7741a8b33fb490bfd164f7a13f108e64d2d2e2cb4b2cedff24a5734/kneaddata-0.7.10.tar.gz#sha256=605678bbfb9683a0c05bd10c06c3541c4c86853674f101c0100b7aa22fa1a868 from build tracker '/tmp/pip-req-tracker-ee_vhynz'
2020-07-29T19:06:35,009 Building wheels for collected packages: kneaddata
2020-07-29T19:06:35,015   Created temporary directory: /tmp/pip-wheel-6341kux1
2020-07-29T19:06:35,016   Building wheel for kneaddata (setup.py): started
2020-07-29T19:06:35,016   Destination directory: /tmp/pip-wheel-6341kux1
2020-07-29T19:06:35,017   Running command /usr/bin/python3 -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-ycm99vf5/kneaddata/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-ycm99vf5/kneaddata/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-6341kux1
2020-07-29T19:06:36,971   running bdist_wheel
2020-07-29T19:06:36,980   running build
2020-07-29T19:06:36,981   running build_py
2020-07-29T19:06:37,264   creating build
2020-07-29T19:06:37,265   creating build/lib
2020-07-29T19:06:37,265   creating build/lib/kneaddata
2020-07-29T19:06:37,268   copying kneaddata/knead_data.py -> build/lib/kneaddata
2020-07-29T19:06:37,272   copying kneaddata/bowtie2_discordant_pairs.py -> build/lib/kneaddata
2020-07-29T19:06:37,276   copying kneaddata/__init__.py -> build/lib/kneaddata
2020-07-29T19:06:37,278   copying kneaddata/read_count_table.py -> build/lib/kneaddata
2020-07-29T19:06:37,281   copying kneaddata/run.py -> build/lib/kneaddata
2020-07-29T19:06:37,285   copying kneaddata/download_db.py -> build/lib/kneaddata
2020-07-29T19:06:37,290   copying kneaddata/read_count_table_concat_pairs.py -> build/lib/kneaddata
2020-07-29T19:06:37,295   copying kneaddata/config.py -> build/lib/kneaddata
2020-07-29T19:06:37,300   copying kneaddata/generate_db.py -> build/lib/kneaddata
2020-07-29T19:06:37,305   copying kneaddata/utilities.py -> build/lib/kneaddata
2020-07-29T19:06:37,312   creating build/lib/kneaddata/db_preprocessing
2020-07-29T19:06:37,314   copying kneaddata/db_preprocessing/downsample.py -> build/lib/kneaddata/db_preprocessing
2020-07-29T19:06:37,317   copying kneaddata/db_preprocessing/mergesams.py -> build/lib/kneaddata/db_preprocessing
2020-07-29T19:06:37,320   copying kneaddata/db_preprocessing/fastq_to_fasta.py -> build/lib/kneaddata/db_preprocessing
2020-07-29T19:06:37,323   copying kneaddata/db_preprocessing/__init__.py -> build/lib/kneaddata/db_preprocessing
2020-07-29T19:06:37,326   copying kneaddata/db_preprocessing/filter_silva.py -> build/lib/kneaddata/db_preprocessing
2020-07-29T19:06:37,329   copying kneaddata/db_preprocessing/prefix_human_transcriptome.py -> build/lib/kneaddata/db_preprocessing
2020-07-29T19:06:37,332   copying kneaddata/db_preprocessing/reservoir.py -> build/lib/kneaddata/db_preprocessing
2020-07-29T19:06:37,334   copying kneaddata/db_preprocessing/convert_rna.py -> build/lib/kneaddata/db_preprocessing
2020-07-29T19:06:37,337   copying kneaddata/db_preprocessing/filter_bugs.py -> build/lib/kneaddata/db_preprocessing
2020-07-29T19:06:37,340   copying kneaddata/db_preprocessing/Modify_RNA_to_DNA.py -> build/lib/kneaddata/db_preprocessing
2020-07-29T19:06:37,345   creating build/lib/kneaddata/tests
2020-07-29T19:06:37,346   copying kneaddata/tests/kneaddata_test.py -> build/lib/kneaddata/tests
2020-07-29T19:06:37,349   copying kneaddata/tests/__init__.py -> build/lib/kneaddata/tests
2020-07-29T19:06:37,351   copying kneaddata/tests/utils.py -> build/lib/kneaddata/tests
2020-07-29T19:06:37,354   copying kneaddata/tests/cfg.py -> build/lib/kneaddata/tests
2020-07-29T19:06:37,357   copying kneaddata/tests/functional_tests.py -> build/lib/kneaddata/tests
2020-07-29T19:06:37,362   copying kneaddata/tests/basic_tests.py -> build/lib/kneaddata/tests
2020-07-29T19:06:37,371   creating build/lib/kneaddata/tests/data
2020-07-29T19:06:37,372   copying kneaddata/tests/data/merge2.fastq -> build/lib/kneaddata/tests/data
2020-07-29T19:06:37,376   copying kneaddata/tests/data/merge1.fastq -> build/lib/kneaddata/tests/data
2020-07-29T19:06:37,380   copying kneaddata/tests/data/demo.sam -> build/lib/kneaddata/tests/data
2020-07-29T19:06:37,411   copying kneaddata/tests/data/demo2.fastq -> build/lib/kneaddata/tests/data
2020-07-29T19:06:37,434   copying kneaddata/tests/data/demo.bam -> build/lib/kneaddata/tests/data
2020-07-29T19:06:37,441   copying kneaddata/tests/data/demo.fastq.gz -> build/lib/kneaddata/tests/data
2020-07-29T19:06:37,448   copying kneaddata/tests/data/demo.fastq -> build/lib/kneaddata/tests/data
2020-07-29T19:06:37,471   copying kneaddata/tests/data/demo_matches_sam_and_bam.fastq -> build/lib/kneaddata/tests/data
2020-07-29T19:06:37,493   copying kneaddata/tests/data/merge3.fastq -> build/lib/kneaddata/tests/data
2020-07-29T19:06:37,496   creating build/lib/kneaddata/tests/data/demo_bowtie2_db
2020-07-29T19:06:37,497   copying kneaddata/tests/data/demo_bowtie2_db/demo_db.rev.2.bt2 -> build/lib/kneaddata/tests/data/demo_bowtie2_db
2020-07-29T19:06:37,501   copying kneaddata/tests/data/demo_bowtie2_db/demo_db.2.bt2 -> build/lib/kneaddata/tests/data/demo_bowtie2_db
2020-07-29T19:06:37,504   copying kneaddata/tests/data/demo_bowtie2_db/demo_db.4.bt2 -> build/lib/kneaddata/tests/data/demo_bowtie2_db
2020-07-29T19:06:37,508   copying kneaddata/tests/data/demo_bowtie2_db/demo_db.1.bt2 -> build/lib/kneaddata/tests/data/demo_bowtie2_db
2020-07-29T19:06:37,692   copying kneaddata/tests/data/demo_bowtie2_db/demo_db.3.bt2 -> build/lib/kneaddata/tests/data/demo_bowtie2_db
2020-07-29T19:06:37,695   copying kneaddata/tests/data/demo_bowtie2_db/demo_db.rev.1.bt2 -> build/lib/kneaddata/tests/data/demo_bowtie2_db
2020-07-29T19:06:38,145   creating build/lib/kneaddata/adapters
2020-07-29T19:06:38,147   copying kneaddata/adapters/TruSeq2-SE.fa -> build/lib/kneaddata/adapters
2020-07-29T19:06:38,153   copying kneaddata/adapters/TruSeq3-SE.fa -> build/lib/kneaddata/adapters
2020-07-29T19:06:38,159   copying kneaddata/adapters/TruSeq2-PE.fa -> build/lib/kneaddata/adapters
2020-07-29T19:06:38,164   copying kneaddata/adapters/NexteraPE-PE.fa -> build/lib/kneaddata/adapters
2020-07-29T19:06:38,170   copying kneaddata/adapters/TruSeq3-PE.fa -> build/lib/kneaddata/adapters
2020-07-29T19:06:38,183   installing to build/bdist.linux-armv7l/wheel
2020-07-29T19:06:38,184   running install
2020-07-29T19:06:38,186   running install_lib
2020-07-29T19:06:38,192   creating build/bdist.linux-armv7l
2020-07-29T19:06:38,192   creating build/bdist.linux-armv7l/wheel
2020-07-29T19:06:38,195   creating build/bdist.linux-armv7l/wheel/kneaddata
2020-07-29T19:06:38,196   copying build/lib/kneaddata/knead_data.py -> build/bdist.linux-armv7l/wheel/kneaddata
2020-07-29T19:06:38,201   copying build/lib/kneaddata/bowtie2_discordant_pairs.py -> build/bdist.linux-armv7l/wheel/kneaddata
2020-07-29T19:06:38,205   creating build/bdist.linux-armv7l/wheel/kneaddata/db_preprocessing
2020-07-29T19:06:38,207   copying build/lib/kneaddata/db_preprocessing/downsample.py -> build/bdist.linux-armv7l/wheel/kneaddata/db_preprocessing
2020-07-29T19:06:38,210   copying build/lib/kneaddata/db_preprocessing/mergesams.py -> build/bdist.linux-armv7l/wheel/kneaddata/db_preprocessing
2020-07-29T19:06:38,213   copying build/lib/kneaddata/db_preprocessing/fastq_to_fasta.py -> build/bdist.linux-armv7l/wheel/kneaddata/db_preprocessing
2020-07-29T19:06:38,216   copying build/lib/kneaddata/db_preprocessing/__init__.py -> build/bdist.linux-armv7l/wheel/kneaddata/db_preprocessing
2020-07-29T19:06:38,218   copying build/lib/kneaddata/db_preprocessing/filter_silva.py -> build/bdist.linux-armv7l/wheel/kneaddata/db_preprocessing
2020-07-29T19:06:38,221   copying build/lib/kneaddata/db_preprocessing/prefix_human_transcriptome.py -> build/bdist.linux-armv7l/wheel/kneaddata/db_preprocessing
2020-07-29T19:06:38,225   copying build/lib/kneaddata/db_preprocessing/reservoir.py -> build/bdist.linux-armv7l/wheel/kneaddata/db_preprocessing
2020-07-29T19:06:38,230   copying build/lib/kneaddata/db_preprocessing/convert_rna.py -> build/bdist.linux-armv7l/wheel/kneaddata/db_preprocessing
2020-07-29T19:06:38,234   copying build/lib/kneaddata/db_preprocessing/filter_bugs.py -> build/bdist.linux-armv7l/wheel/kneaddata/db_preprocessing
2020-07-29T19:06:38,239   copying build/lib/kneaddata/db_preprocessing/Modify_RNA_to_DNA.py -> build/bdist.linux-armv7l/wheel/kneaddata/db_preprocessing
2020-07-29T19:06:38,244   creating build/bdist.linux-armv7l/wheel/kneaddata/tests
2020-07-29T19:06:38,245   copying build/lib/kneaddata/tests/kneaddata_test.py -> build/bdist.linux-armv7l/wheel/kneaddata/tests
2020-07-29T19:06:38,249   copying build/lib/kneaddata/tests/__init__.py -> build/bdist.linux-armv7l/wheel/kneaddata/tests
2020-07-29T19:06:38,251   copying build/lib/kneaddata/tests/utils.py -> build/bdist.linux-armv7l/wheel/kneaddata/tests
2020-07-29T19:06:38,254   copying build/lib/kneaddata/tests/cfg.py -> build/bdist.linux-armv7l/wheel/kneaddata/tests
2020-07-29T19:06:38,257   copying build/lib/kneaddata/tests/functional_tests.py -> build/bdist.linux-armv7l/wheel/kneaddata/tests
2020-07-29T19:06:38,264   creating build/bdist.linux-armv7l/wheel/kneaddata/tests/data
2020-07-29T19:06:38,266   copying build/lib/kneaddata/tests/data/merge2.fastq -> build/bdist.linux-armv7l/wheel/kneaddata/tests/data
2020-07-29T19:06:38,272   creating build/bdist.linux-armv7l/wheel/kneaddata/tests/data/demo_bowtie2_db
2020-07-29T19:06:38,274   copying build/lib/kneaddata/tests/data/demo_bowtie2_db/demo_db.rev.2.bt2 -> build/bdist.linux-armv7l/wheel/kneaddata/tests/data/demo_bowtie2_db
2020-07-29T19:06:38,279   copying build/lib/kneaddata/tests/data/demo_bowtie2_db/demo_db.2.bt2 -> build/bdist.linux-armv7l/wheel/kneaddata/tests/data/demo_bowtie2_db
2020-07-29T19:06:38,283   copying build/lib/kneaddata/tests/data/demo_bowtie2_db/demo_db.4.bt2 -> build/bdist.linux-armv7l/wheel/kneaddata/tests/data/demo_bowtie2_db
2020-07-29T19:06:38,286   copying build/lib/kneaddata/tests/data/demo_bowtie2_db/demo_db.1.bt2 -> build/bdist.linux-armv7l/wheel/kneaddata/tests/data/demo_bowtie2_db
2020-07-29T19:06:38,470   copying build/lib/kneaddata/tests/data/demo_bowtie2_db/demo_db.3.bt2 -> build/bdist.linux-armv7l/wheel/kneaddata/tests/data/demo_bowtie2_db
2020-07-29T19:06:38,472   copying build/lib/kneaddata/tests/data/demo_bowtie2_db/demo_db.rev.1.bt2 -> build/bdist.linux-armv7l/wheel/kneaddata/tests/data/demo_bowtie2_db
2020-07-29T19:06:38,656   copying build/lib/kneaddata/tests/data/merge1.fastq -> build/bdist.linux-armv7l/wheel/kneaddata/tests/data
2020-07-29T19:06:38,659   copying build/lib/kneaddata/tests/data/demo.sam -> build/bdist.linux-armv7l/wheel/kneaddata/tests/data
2020-07-29T19:06:38,683   copying build/lib/kneaddata/tests/data/demo2.fastq -> build/bdist.linux-armv7l/wheel/kneaddata/tests/data
2020-07-29T19:06:38,705   copying build/lib/kneaddata/tests/data/demo.bam -> build/bdist.linux-armv7l/wheel/kneaddata/tests/data
2020-07-29T19:06:38,711   copying build/lib/kneaddata/tests/data/demo.fastq.gz -> build/bdist.linux-armv7l/wheel/kneaddata/tests/data
2020-07-29T19:06:38,718   copying build/lib/kneaddata/tests/data/demo.fastq -> build/bdist.linux-armv7l/wheel/kneaddata/tests/data
2020-07-29T19:06:38,747   copying build/lib/kneaddata/tests/data/demo_matches_sam_and_bam.fastq -> build/bdist.linux-armv7l/wheel/kneaddata/tests/data
2020-07-29T19:06:38,771   copying build/lib/kneaddata/tests/data/merge3.fastq -> build/bdist.linux-armv7l/wheel/kneaddata/tests/data
2020-07-29T19:06:38,774   copying build/lib/kneaddata/tests/basic_tests.py -> build/bdist.linux-armv7l/wheel/kneaddata/tests
2020-07-29T19:06:38,777   copying build/lib/kneaddata/__init__.py -> build/bdist.linux-armv7l/wheel/kneaddata
2020-07-29T19:06:38,780   copying build/lib/kneaddata/read_count_table.py -> build/bdist.linux-armv7l/wheel/kneaddata
2020-07-29T19:06:38,783   copying build/lib/kneaddata/run.py -> build/bdist.linux-armv7l/wheel/kneaddata
2020-07-29T19:06:38,787   copying build/lib/kneaddata/download_db.py -> build/bdist.linux-armv7l/wheel/kneaddata
2020-07-29T19:06:38,790   copying build/lib/kneaddata/read_count_table_concat_pairs.py -> build/bdist.linux-armv7l/wheel/kneaddata
2020-07-29T19:06:38,793   copying build/lib/kneaddata/config.py -> build/bdist.linux-armv7l/wheel/kneaddata
2020-07-29T19:06:38,798   copying build/lib/kneaddata/generate_db.py -> build/bdist.linux-armv7l/wheel/kneaddata
2020-07-29T19:06:38,803   copying build/lib/kneaddata/utilities.py -> build/bdist.linux-armv7l/wheel/kneaddata
2020-07-29T19:06:38,811   creating build/bdist.linux-armv7l/wheel/kneaddata/adapters
2020-07-29T19:06:38,813   copying build/lib/kneaddata/adapters/TruSeq2-SE.fa -> build/bdist.linux-armv7l/wheel/kneaddata/adapters
2020-07-29T19:06:38,817   copying build/lib/kneaddata/adapters/TruSeq3-SE.fa -> build/bdist.linux-armv7l/wheel/kneaddata/adapters
2020-07-29T19:06:38,820   copying build/lib/kneaddata/adapters/TruSeq2-PE.fa -> build/bdist.linux-armv7l/wheel/kneaddata/adapters
2020-07-29T19:06:38,823   copying build/lib/kneaddata/adapters/NexteraPE-PE.fa -> build/bdist.linux-armv7l/wheel/kneaddata/adapters
2020-07-29T19:06:38,826   copying build/lib/kneaddata/adapters/TruSeq3-PE.fa -> build/bdist.linux-armv7l/wheel/kneaddata/adapters
2020-07-29T19:06:38,828   running install_egg_info
2020-07-29T19:06:38,858   running egg_info
2020-07-29T19:06:38,859   writing entry points to kneaddata.egg-info/entry_points.txt
2020-07-29T19:06:38,861   writing kneaddata.egg-info/PKG-INFO
2020-07-29T19:06:38,864   writing top-level names to kneaddata.egg-info/top_level.txt
2020-07-29T19:06:38,865   writing dependency_links to kneaddata.egg-info/dependency_links.txt
2020-07-29T19:06:38,879   reading manifest file 'kneaddata.egg-info/SOURCES.txt'
2020-07-29T19:06:38,884   reading manifest template 'MANIFEST.in'
2020-07-29T19:06:38,898   writing manifest file 'kneaddata.egg-info/SOURCES.txt'
2020-07-29T19:06:38,900   Copying kneaddata.egg-info to build/bdist.linux-armv7l/wheel/kneaddata-0.7.10-py3.5.egg-info
2020-07-29T19:06:38,919   running install_scripts
2020-07-29T19:06:38,981   Installing Trimmomatic.
2020-07-29T19:06:38,981   Downloading http://www.usadellab.org/cms/uploads/supplementary/Trimmomatic/Trimmomatic-0.33.zip
2020-07-29T19:06:39,932   Downloading file of size: 0.12 MB

2020-07-29T19:06:40,374   0.01 MB 6.59 %  12.20 MB/sec  0 min  0 sec         
2020-07-29T19:06:40,374   0.02 MB 13.19 %   0.12 MB/sec  0 min  1 sec         
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2020-07-29T19:06:40,374   Warning: Unable to install Trimmomatic. Please install Trimmomatic.
2020-07-29T19:06:40,377   Installing bowtie2.
2020-07-29T19:06:40,377   Downloading http://sourceforge.net/projects/bowtie-bio/files/bowtie2/2.2.3/bowtie2-2.2.3-linux-x86_64.zip
2020-07-29T19:08:55,038   Warning: Unable to download http://sourceforge.net/projects/bowtie-bio/files/bowtie2/2.2.3/bowtie2-2.2.3-linux-x86_64.zip
2020-07-29T19:08:55,040   Warning: Unable to extract bowtie2.
2020-07-29T19:08:55,042   Warning: Bowtie2 files not found.
2020-07-29T19:08:55,043   Warning: Unable to install bowtie2. Please install bowtie2.
2020-07-29T19:08:55,044   Downloading http://tandem.bu.edu/trf/downloads/trf409.linux64
2020-07-29T19:08:55,276   Warning: Unable to download http://tandem.bu.edu/trf/downloads/trf409.linux64
2020-07-29T19:08:55,278   ERROR: Unable to install TRF
2020-07-29T19:08:55,320   creating build/bdist.linux-armv7l/wheel/kneaddata-0.7.10.dist-info/WHEEL
2020-07-29T19:08:56,686   Building wheel for kneaddata (setup.py): finished with status 'done'
2020-07-29T19:08:56,698   Created wheel for kneaddata: filename=kneaddata-0.7.10-py3-none-any.whl size=554473 sha256=4dbe20deed93d23aa28874d6e56c854ec39140f5f2dcd39ceafad221ecc79989
2020-07-29T19:08:56,699   Stored in directory: /tmp/pip-ephem-wheel-cache-68i3k4va/wheels/12/d2/fa/01d769b386627717b30bd29c533cf0f81ce18eeb2f3bd822e3
2020-07-29T19:08:56,702 Successfully built kneaddata
2020-07-29T19:08:56,882 Removed build tracker: '/tmp/pip-req-tracker-ee_vhynz'