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run unit test. new script (OOBed7_uses_mirrored_database_correctmerge…
….py) passed all tests. prev script failed three tests (28,29,30) due to new merge step. new script ready to be implemented
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ryank
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Jun 20, 2016
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...s/TestArea_for_bed_generation_script/160620aledunittest/OOBed7_uses_mirrored_database_.py
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...files/TestArea_for_bed_generation_script/160620aledunittest/Pan71testUTR_live_Logfile.txt
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| Original file line number | Diff line number | Diff line change |
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| Command arguments executed: | ||
| OOBed7_uses_mirrored_database_.py --StartFlank 50 --codingup 0 --StopFlank 100 --codingdown 0 --transcripts /home/ryank/GithubRepoLive/mokapipe/LiveBedfiles/TestArea_for_bed_generation_script/Pan71_truthsubset.txt --logfile ./160620aledunittest//Pan71testUTR_live_Logfile.txt --useaccessions --outputfile ./160620aledunittest//liveoutputUTR.bed | ||
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| Python version: 2.7 (r27:82500, Oct 25 2012, 12:29:43) | ||
| [GCC 4.4.6 20110731 (Red Hat 4.4.6-3)] | ||
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| getopt module file path: /apps/python/2.7/lib/python2.7/getopt.pyc | ||
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| os module file path: /apps/python/2.7/lib/python2.7/os.pyc | ||
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| pd class file path: /apps/python/2.7/lib/python2.7/site-packages/pandas/__init__.pyc | ||
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| cruzdb module file path: /apps/python/2.7/lib/python2.7/site-packages/cruzdb/__init__.pyc |
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...dfiles/TestArea_for_bed_generation_script/160620aledunittest/Pan71testUTR_new_Logfile.txt
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| Original file line number | Diff line number | Diff line change |
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| @@ -0,0 +1,15 @@ | ||
| Command arguments executed: | ||
| OOBed7_uses_mirrored_database_correctmerge.py --StartFlank 50 --codingup 0 --StopFlank 100 --codingdown 0 --transcripts /home/ryank/GithubRepoLive/mokapipe/LiveBedfiles/TestArea_for_bed_generation_script/Pan71_truthsubset.txt --logfile ./160620aledunittest//Pan71testUTR_new_Logfile.txt --useaccessions --outputfile ./160620aledunittest//newoutputUTR.bed | ||
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| Python version: 2.7 (r27:82500, Oct 25 2012, 12:29:43) | ||
| [GCC 4.4.6 20110731 (Red Hat 4.4.6-3)] | ||
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| getopt module file path: /apps/python/2.7/lib/python2.7/getopt.pyc | ||
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| os module file path: /apps/python/2.7/lib/python2.7/os.pyc | ||
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| pd class file path: /apps/python/2.7/lib/python2.7/site-packages/pandas/__init__.pyc | ||
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| cruzdb module file path: /apps/python/2.7/lib/python2.7/site-packages/cruzdb/__init__.pyc | ||
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| version as defined by git tag = v0.1-5-g157b02f |
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...Bedfiles/TestArea_for_bed_generation_script/160620aledunittest/Pan71test_live_Logfile.txt
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,13 @@ | ||
| Command arguments executed: | ||
| OOBed7_uses_mirrored_database_.py --codingup 30 --codingdown 20 --transcripts /home/ryank/GithubRepoLive/mokapipe/LiveBedfiles/TestArea_for_bed_generation_script/Pan71_truthset.txt --logfile ./160620aledunittest//Pan71test_live_Logfile.txt --useaccessions --outputfile ./160620aledunittest//liveoutput.bed | ||
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| Python version: 2.7 (r27:82500, Oct 25 2012, 12:29:43) | ||
| [GCC 4.4.6 20110731 (Red Hat 4.4.6-3)] | ||
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| getopt module file path: /apps/python/2.7/lib/python2.7/getopt.pyc | ||
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| os module file path: /apps/python/2.7/lib/python2.7/os.pyc | ||
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| pd class file path: /apps/python/2.7/lib/python2.7/site-packages/pandas/__init__.pyc | ||
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| cruzdb module file path: /apps/python/2.7/lib/python2.7/site-packages/cruzdb/__init__.pyc |
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LiveBedfiles/TestArea_for_bed_generation_script/160620aledunittest/Pan71test_new_Logfile.txt
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,15 @@ | ||
| Command arguments executed: | ||
| OOBed7_uses_mirrored_database_correctmerge.py --codingup 30 --codingdown 20 --transcripts /home/ryank/GithubRepoLive/mokapipe/LiveBedfiles/TestArea_for_bed_generation_script/Pan71_truthset.txt --logfile ./160620aledunittest//Pan71test_new_Logfile.txt --useaccessions --outputfile ./160620aledunittest//newoutput.bed | ||
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| Python version: 2.7 (r27:82500, Oct 25 2012, 12:29:43) | ||
| [GCC 4.4.6 20110731 (Red Hat 4.4.6-3)] | ||
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| getopt module file path: /apps/python/2.7/lib/python2.7/getopt.pyc | ||
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| os module file path: /apps/python/2.7/lib/python2.7/os.pyc | ||
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| pd class file path: /apps/python/2.7/lib/python2.7/site-packages/pandas/__init__.pyc | ||
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| cruzdb module file path: /apps/python/2.7/lib/python2.7/site-packages/cruzdb/__init__.pyc | ||
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| version as defined by git tag = v0.1-5-g157b02f |
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...iles/TestArea_for_bed_generation_script/160620aledunittest/Pan71testexon_live_Logfile.txt
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| Original file line number | Diff line number | Diff line change |
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| @@ -0,0 +1,13 @@ | ||
| Command arguments executed: | ||
| OOBed7_uses_mirrored_database_.py --up 15 --codingup 0 --down 10 --codingdown 0 --transcripts /home/ryank/GithubRepoLive/mokapipe/LiveBedfiles/TestArea_for_bed_generation_script/Pan71_truthsubset.txt --logfile ./160620aledunittest//Pan71testexon_live_Logfile.txt --useaccessions --outputfile ./160620aledunittest//liveoutputexon.bed | ||
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| Python version: 2.7 (r27:82500, Oct 25 2012, 12:29:43) | ||
| [GCC 4.4.6 20110731 (Red Hat 4.4.6-3)] | ||
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| getopt module file path: /apps/python/2.7/lib/python2.7/getopt.pyc | ||
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| os module file path: /apps/python/2.7/lib/python2.7/os.pyc | ||
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| pd class file path: /apps/python/2.7/lib/python2.7/site-packages/pandas/__init__.pyc | ||
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| cruzdb module file path: /apps/python/2.7/lib/python2.7/site-packages/cruzdb/__init__.pyc |
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...files/TestArea_for_bed_generation_script/160620aledunittest/Pan71testexon_new_Logfile.txt
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,15 @@ | ||
| Command arguments executed: | ||
| OOBed7_uses_mirrored_database_correctmerge.py --up 15 --codingup 0 --down 10 --codingdown 0 --transcripts /home/ryank/GithubRepoLive/mokapipe/LiveBedfiles/TestArea_for_bed_generation_script/Pan71_truthsubset.txt --logfile ./160620aledunittest//Pan71testexon_new_Logfile.txt --useaccessions --outputfile ./160620aledunittest//newoutputexon.bed | ||
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| Python version: 2.7 (r27:82500, Oct 25 2012, 12:29:43) | ||
| [GCC 4.4.6 20110731 (Red Hat 4.4.6-3)] | ||
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| getopt module file path: /apps/python/2.7/lib/python2.7/getopt.pyc | ||
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| os module file path: /apps/python/2.7/lib/python2.7/os.pyc | ||
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| pd class file path: /apps/python/2.7/lib/python2.7/site-packages/pandas/__init__.pyc | ||
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| cruzdb module file path: /apps/python/2.7/lib/python2.7/site-packages/cruzdb/__init__.pyc | ||
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| version as defined by git tag = v0.1-5-g157b02f |
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..._bed_generation_script/160620aledunittest/Pan81_subset_20genesymbols_codingexons_live.bed
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| #Chr Start Stop Accession GeneName | ||
| chr19 58858367 58858425 ['NM_130786.3'] A1BG | ||
| chr19 58858698 58859036 ['NM_130786.3'] A1BG | ||
| chr19 58861715 58862047 ['NM_130786.3'] A1BG | ||
| chr19 58862736 58863083 ['NM_130786.3'] A1BG | ||
| chr19 58863628 58863951 ['NM_130786.3'] A1BG | ||
| chr19 58864273 58864593 ['NM_130786.3'] A1BG | ||
| chr19 58864637 58864723 ['NM_130786.3'] A1BG | ||
| chr19 58864749 58864833 ['NM_130786.3'] A1BG | ||
| chr10 52566468 52566670 ['NM_001198820.1', 'NM_014576.3', 'NM_138932.2', 'NM_001198819.1', 'NM_001198818.1', 'NM_138933.2'] A1CF | ||
| chr10 52569633 52569832 ['NM_001198820.1', 'NM_014576.3', 'NM_138932.2', 'NM_001198819.1', 'NM_001198818.1', 'NM_138933.2'] A1CF | ||
| chr10 52570779 52570966 ['NM_001198820.1', 'NM_014576.3', 'NM_138932.2', 'NM_001198819.1', 'NM_001198818.1', 'NM_138933.2'] A1CF | ||
| chr10 52573596 52573852 ['NM_001198820.1', 'NM_014576.3', 'NM_138932.2', 'NM_001198819.1', 'NM_001198818.1', 'NM_138933.2'] A1CF | ||
| chr10 52575745 52576069 ['NM_001198820.1', 'NM_014576.3', 'NM_138932.2', 'NM_001198819.1', 'NM_001198818.1', 'NM_138933.2'] A1CF | ||
| chr10 52580291 52580439 ['NM_001198820.1', 'NM_014576.3', 'NM_138932.2', 'NM_001198819.1', 'NM_001198818.1', 'NM_138933.2'] A1CF | ||
| chr10 52587870 52588085 ['NM_001198820.1', 'NM_014576.3', 'NM_138932.2', 'NM_001198819.1', 'NM_001198818.1', 'NM_138933.2'] A1CF | ||
| chr10 52595813 52596102 ['NM_001198820.1', 'NM_014576.3', 'NM_138932.2', 'NM_001198819.1', 'NM_001198818.1', 'NM_138933.2'] A1CF | ||
| chr10 52601601 52601782 ['NM_001198820.1', 'NM_014576.3', 'NM_138932.2', 'NM_001198819.1', 'NM_001198818.1', 'NM_138933.2'] A1CF | ||
| chr10 52603727 52603912 ['NM_001198820.1', 'NM_014576.3', 'NM_138932.2', 'NM_001198819.1', 'NM_001198818.1', 'NM_138933.2'] A1CF | ||
| chr10 52610404 52610577 ['NM_001198820.1', 'NM_014576.3', 'NM_138932.2', 'NM_001198819.1', 'NM_001198818.1', 'NM_138933.2'] A1CF | ||
| chr10 52619581 52619730 ['NM_001198820.1', 'NM_014576.3', 'NM_138932.2', 'NM_001198819.1', 'NM_001198818.1', 'NM_138933.2'] A1CF | ||
| chr12 9220398 9220465 ['NM_000014.4'] A2M | ||
| chr12 9220758 9220850 ['NM_000014.4'] A2M | ||
| chr12 9221315 9221468 ['NM_000014.4'] A2M | ||
| chr12 9222320 9222439 ['NM_000014.4'] A2M | ||
| chr12 9223063 9223204 ['NM_000014.4'] A2M | ||
| chr12 9224934 9225112 ['NM_000014.4'] A2M | ||
| chr12 9225228 9225497 ['NM_000014.4'] A2M | ||
| chr12 9227135 9227409 ['NM_000014.4'] A2M | ||
| chr12 9229331 9229562 ['NM_000014.4'] A2M | ||
| chr12 9229921 9230046 ['NM_000014.4'] A2M | ||
| chr12 9230276 9230483 ['NM_000014.4'] A2M | ||
| chr12 9231819 9231957 ['NM_000014.4'] A2M | ||
| chr12 9232214 9232441 ['NM_000014.4'] A2M | ||
| chr12 9232669 9232803 ['NM_000014.4'] A2M | ||
| chr12 9241775 9241877 ['NM_000014.4'] A2M | ||
| chr12 9242477 9242649 ['NM_000014.4'] A2M | ||
| chr12 9242931 9243108 ['NM_000014.4'] A2M | ||
| chr12 9243776 9244055 ['NM_000014.4'] A2M | ||
| chr12 9246040 9246205 ['NM_000014.4'] A2M | ||
| chr12 9247548 9247710 ['NM_000014.4'] A2M | ||
| chr12 9248114 9248326 ['NM_000014.4'] A2M | ||
| chr12 9251182 9251382 ['NM_000014.4'] A2M | ||
| chr12 9251956 9252149 ['NM_000014.4'] A2M | ||
| chr12 9253719 9253833 ['NM_000014.4'] A2M | ||
| chr12 9254022 9254300 ['NM_000014.4'] A2M | ||
| chr12 9256814 9257026 ['NM_000014.4'] A2M | ||
| chr12 9258811 9258971 ['NM_000014.4'] A2M | ||
| chr12 9259066 9259231 ['NM_000014.4'] A2M | ||
| chr12 9260099 9260270 ['NM_000014.4'] A2M | ||
| chr12 9261896 9262031 ['NM_000014.4'] A2M | ||
| chr12 9262442 9262661 ['NM_000014.4'] A2M | ||
| chr12 9262889 9262960 ['NM_000014.4'] A2M | ||
| chr12 9264734 9264837 ['NM_000014.4'] A2M | ||
| chr12 9264952 9265162 ['NM_000014.4'] A2M | ||
| chr12 9265935 9266169 ['NM_000014.4'] A2M | ||
| chr12 9268339 9268475 ['NM_000014.4'] A2M | ||
| chr12 8975217 8975329 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 8975747 8975981 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 8976285 8976498 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 8982292 8982395 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 8987227 8987298 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 8988072 8988282 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 8988820 8988955 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 8990005 8990182 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 8990901 8991066 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 8991678 8991838 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 8993934 8994152 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 8995699 8995977 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 8997737 8997790 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 8998007 8998118 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 8998642 8998838 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 9000114 9000314 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 9001285 9001530 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 9002234 9002375 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 9002725 9002890 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 9004349 9004628 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 9004775 9004952 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 9006693 9006865 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 9007345 9007447 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 9008074 9008208 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 9009729 9009956 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 9010072 9010204 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 9010511 9010718 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 9013446 9013571 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 9013700 9013913 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 9016359 9016624 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 9020407 9020673 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 9020795 9020973 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 9021102 9021243 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 9021700 9021819 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 9026990 9027143 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr12 9027536 9027627 ['NM_001282424.2', 'NM_144670.5'] A2ML1 | ||
| chr1 33772346 33773084 ['NM_001080438.1'] A3GALT2 | ||
| chr1 33777632 33777820 ['NM_001080438.1'] A3GALT2 | ||
| chr1 33778081 33778221 ['NM_001080438.1'] A3GALT2 | ||
| chr1 33778387 33778521 ['NM_001080438.1'] A3GALT2 | ||
| chr1 33786656 33786729 ['NM_001080438.1'] A3GALT2 | ||
| chr22 43088875 43089987 ['NM_017436.4'] A4GALT | ||
| chr3 137843085 137843750 ['NM_016161.2'] A4GNT | ||
| chr3 137849670 137850128 ['NM_016161.2'] A4GNT | ||
| chr12 53701252 53701527 ['NM_001173466.1', 'NM_015665.5'] AAAS | ||
| chr12 53701608 53701743 ['NM_001173466.1', 'NM_015665.5'] AAAS | ||
| chr12 53701815 53701947 ['NM_001173466.1', 'NM_015665.5'] AAAS | ||
| chr12 53702045 53702163 ['NM_001173466.1', 'NM_015665.5'] AAAS | ||
| chr12 53702198 53702342 ['NM_001173466.1', 'NM_015665.5'] AAAS | ||
| chr12 53702488 53702629 ['NM_001173466.1', 'NM_015665.5'] AAAS | ||
| chr12 53702723 53702834 ['NM_001173466.1', 'NM_015665.5'] AAAS | ||
| chr12 53702920 53703095 ['NM_001173466.1', 'NM_015665.5'] AAAS | ||
| chr12 53703364 53703535 ['NM_001173466.1', 'NM_015665.5'] AAAS | ||
| chr12 53708061 53708255 ['NM_001173466.1', 'NM_015665.5'] AAAS | ||
| chr12 53708514 53708663 ['NM_001173466.1', 'NM_015665.5'] AAAS | ||
| chr12 53708857 53708954 ['NM_001173466.1', 'NM_015665.5'] AAAS | ||
| chr12 53709098 53709240 ['NM_001173466.1', 'NM_015665.5'] AAAS | ||
| chr12 53709490 53709596 ['NM_001173466.1', 'NM_015665.5'] AAAS | ||
| chr12 53714328 53714506 ['NM_001173466.1', 'NM_015665.5'] AAAS | ||
| chr12 53715106 53715279 ['NM_001173466.1', 'NM_015665.5'] AAAS | ||
| chr12 125550100 125550283 ['NM_023928.3'] AACS | ||
| chr12 125558391 125558545 ['NM_023928.3'] AACS | ||
| chr12 125561006 125561177 ['NM_023928.3'] AACS | ||
| chr12 125570845 125571009 ['NM_023928.3'] AACS | ||
| chr12 125575941 125576089 ['NM_023928.3'] AACS | ||
| chr12 125587194 125587359 ['NM_023928.3'] AACS | ||
| chr12 125587515 125587647 ['NM_023928.3'] AACS | ||
| chr12 125591636 125591834 ['NM_023928.3'] AACS | ||
| chr12 125598992 125599123 ['NM_023928.3'] AACS | ||
| chr12 125603156 125603331 ['NM_023928.3'] AACS | ||
| chr12 125609220 125609335 ['NM_023928.3'] AACS | ||
| chr12 125609417 125609590 ['NM_023928.3'] AACS | ||
| chr12 125612676 125612840 ['NM_023928.3'] AACS | ||
| chr12 125613850 125614026 ['NM_023928.3'] AACS | ||
| chr12 125618518 125618638 ['NM_023928.3'] AACS | ||
| chr12 125619309 125619418 ['NM_023928.3'] AACS | ||
| chr12 125621177 125621430 ['NM_023928.3'] AACS | ||
| chr12 125626607 125626795 ['NM_023928.3'] AACS | ||
| chr3 151531920 151532108 ['NM_001086.2'] AADAC | ||
| chr3 151535123 151535396 ['NM_001086.2'] AADAC | ||
| chr3 151538140 151538260 ['NM_001086.2'] AADAC | ||
| chr3 151542420 151542642 ['NM_001086.2'] AADAC | ||
| chr3 151545333 151545980 ['NM_001086.2'] AADAC | ||
| chr3 151451793 151451981 ['NM_207365.3'] AADACL2 | ||
| chr3 151458403 151458676 ['NM_207365.3'] AADACL2 | ||
| chr3 151461850 151461970 ['NM_207365.3'] AADACL2 | ||
| chr3 151463266 151463488 ['NM_207365.3'] AADACL2 | ||
| chr3 151474749 151475402 ['NM_207365.3'] AADACL2 | ||
| chr1 12776149 12776367 ['NR_111984.1', 'NM_001103170.2'] AADACL3 | ||
| chr1 12779446 12779713 ['NR_111984.1', 'NM_001103170.2'] AADACL3 | ||
| chr1 12780854 12780968 ['NR_111984.1', 'NM_001103170.2'] AADACL3 | ||
| chr1 12785158 12785983 ['NR_111984.1', 'NM_001103170.2'] AADACL3 | ||
| chr1 12704535 12704753 ['NM_001013630.1'] AADACL4 | ||
| chr1 12711111 12711378 ['NM_001013630.1'] AADACL4 | ||
| chr1 12721771 12721885 ['NM_001013630.1'] AADACL4 | ||
| chr1 12725941 12726766 ['NM_001013630.1'] AADACL4 | ||
| chr4 170982058 170982150 ['NM_016228.3', 'NM_182662.1', 'NM_001286682.1', 'NM_001286683.1'] AADAT | ||
| chr4 170983022 170983174 ['NM_016228.3', 'NM_182662.1', 'NM_001286682.1', 'NM_001286683.1'] AADAT | ||
| chr4 170985849 170986006 ['NM_016228.3', 'NM_182662.1', 'NM_001286682.1', 'NM_001286683.1'] AADAT | ||
| chr4 170987544 170987659 ['NM_016228.3', 'NM_182662.1', 'NM_001286682.1', 'NM_001286683.1'] AADAT | ||
| chr4 170988457 170988569 ['NM_016228.3', 'NM_182662.1', 'NM_001286682.1', 'NM_001286683.1'] AADAT | ||
| chr4 170989721 170989868 ['NM_016228.3', 'NM_182662.1', 'NM_001286682.1', 'NM_001286683.1'] AADAT | ||
| chr4 170990278 170990411 ['NM_016228.3', 'NM_182662.1', 'NM_001286682.1', 'NM_001286683.1'] AADAT | ||
| chr4 170991717 170991833 ['NM_016228.3', 'NM_182662.1', 'NM_001286682.1', 'NM_001286683.1'] AADAT | ||
| chr4 170994266 170994526 ['NM_016228.3', 'NM_182662.1', 'NM_001286682.1', 'NM_001286683.1'] AADAT | ||
| chr4 170999639 170999764 ['NM_016228.3', 'NM_182662.1', 'NM_001286682.1', 'NM_001286683.1'] AADAT | ||
| chr4 171008246 171008429 ['NM_016228.3', 'NM_182662.1', 'NM_001286682.1', 'NM_001286683.1'] AADAT | ||
| chr4 171009526 171009745 ['NM_016228.3', 'NM_182662.1', 'NM_001286682.1', 'NM_001286683.1'] AADAT | ||
| chr4 171010742 171010871 ['NM_016228.3', 'NM_182662.1', 'NM_001286682.1', 'NM_001286683.1'] AADAT | ||
| chr9 99404020 99404198 ['NM_153698.1'] AAED1 | ||
| chr9 99408154 99408336 ['NM_153698.1'] AAED1 | ||
| chr9 99413651 99413807 ['NM_153698.1'] AAED1 | ||
| chr9 99413920 99414024 ['NM_153698.1'] AAED1 | ||
| chr9 99416966 99417085 ['NM_153698.1'] AAED1 | ||
| chr9 99417351 99417593 ['NM_153698.1'] AAED1 | ||
| chr15 67495138 67495266 ['NM_024666.4', 'NM_001271886.1', 'NM_001271885.1'] AAGAB | ||
| chr15 67495865 67495965 ['NM_024666.4', 'NM_001271886.1', 'NM_001271885.1'] AAGAB | ||
| chr15 67496361 67496516 ['NM_024666.4', 'NM_001271886.1', 'NM_001271885.1'] AAGAB | ||
| chr15 67500879 67501026 ['NM_024666.4', 'NM_001271886.1', 'NM_001271885.1'] AAGAB | ||
| chr15 67501779 67501912 ['NM_024666.4', 'NM_001271886.1', 'NM_001271885.1'] AAGAB | ||
| chr15 67524131 67524265 ['NM_024666.4', 'NM_001271886.1', 'NM_001271885.1'] AAGAB | ||
| chr15 67528296 67528436 ['NM_024666.4', 'NM_001271886.1', 'NM_001271885.1'] AAGAB | ||
| chr15 67528725 67528872 ['NM_024666.4', 'NM_001271886.1', 'NM_001271885.1'] AAGAB | ||
| chr15 67528947 67529188 ['NM_024666.4', 'NM_001271886.1', 'NM_001271885.1'] AAGAB | ||
| chr15 67546876 67546999 ['NM_024666.4', 'NM_001271886.1', 'NM_001271885.1'] AAGAB | ||
| chr2 69702980 69703125 ['NM_014911.3'] AAK1 | ||
| chr2 69703991 69704152 ['NM_014911.3'] AAK1 | ||
| chr2 69706062 69706223 ['NM_014911.3'] AAK1 | ||
| chr2 69707971 69708123 ['NM_014911.3'] AAK1 | ||
| chr2 69709822 69709974 ['NM_014911.3'] AAK1 | ||
| chr2 69723096 69723242 ['NM_014911.3'] AAK1 | ||
| chr2 69732680 69732835 ['NM_014911.3'] AAK1 | ||
| chr2 69734532 69734740 ['NM_014911.3'] AAK1 | ||
| chr2 69736342 69736622 ['NM_014911.3'] AAK1 | ||
| chr2 69741582 69741911 ['NM_014911.3'] AAK1 | ||
| chr2 69746065 69746402 ['NM_014911.3'] AAK1 | ||
| chr2 69747945 69748150 ['NM_014911.3'] AAK1 | ||
| chr2 69752144 69752274 ['NM_014911.3'] AAK1 | ||
| chr2 69754327 69754481 ['NM_014911.3'] AAK1 | ||
| chr2 69757119 69757302 ['NM_014911.3'] AAK1 | ||
| chr2 69757736 69757868 ['NM_014911.3'] AAK1 | ||
| chr2 69759152 69759324 ['NM_014911.3'] AAK1 | ||
| chr2 69769634 69769827 ['NM_014911.3'] AAK1 | ||
| chr2 69771547 69771706 ['NM_014911.3'] AAK1 | ||
| chr2 69783971 69784140 ['NM_014911.3'] AAK1 | ||
| chr2 69869989 69870202 ['NM_014911.3'] AAK1 | ||
| chr11 77553512 77553694 ['NM_024684.3'] AAMDC | ||
| chr11 77580737 77580883 ['NM_024684.3'] AAMDC | ||
| chr11 77583190 77583381 ['NM_024684.3'] AAMDC | ||
| chr2 219129235 219129361 ['NM_001087.4'] AAMP | ||
| chr2 219129722 219129927 ['NM_001087.4'] AAMP | ||
| chr2 219130073 219130214 ['NM_001087.4'] AAMP | ||
| chr2 219130281 219130435 ['NM_001087.4'] AAMP | ||
| chr2 219130533 219130699 ['NM_001087.4'] AAMP | ||
| chr2 219130766 219130900 ['NM_001087.4'] AAMP | ||
| chr2 219131145 219131340 ['NM_001087.4'] AAMP | ||
| chr2 219131549 219131739 ['NM_001087.4'] AAMP | ||
| chr2 219132196 219132366 ['NM_001087.4'] AAMP | ||
| chr2 219134084 219134287 ['NM_001087.4'] AAMP | ||
| chr2 219134668 219134839 ['NM_001087.4'] AAMP | ||
| chr17 74462224 74462334 ['NM_001088.2', 'NM_001166579.1', 'NR_110548.1'] AANAT | ||
| chr17 74464723 74465011 ['NM_001088.2', 'NM_001166579.1', 'NR_110548.1'] AANAT | ||
| chr17 74465224 74465429 ['NM_001088.2', 'NM_001166579.1', 'NR_110548.1'] AANAT | ||
| chr17 74465716 74466072 ['NM_001088.2', 'NM_001166579.1', 'NR_110548.1'] AANAT |
13 changes: 13 additions & 0 deletions
13
...eration_script/160620aledunittest/Pan81_subset_20genesymbols_codingexons_live_Logfile.txt
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| Original file line number | Diff line number | Diff line change |
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| @@ -0,0 +1,13 @@ | ||
| Command arguments executed: | ||
| OOBed7_uses_mirrored_database_.py --codingup 30 --codingdown 20 --genes /home/ryank/GithubRepoLive/mokapipe/LiveBedfiles/TestArea_for_bed_generation_script/Pan81_subset_20genesymbols.txt --logfile ./160620aledunittest//Pan81_subset_20genesymbols_codingexons_live_Logfile.txt --mergeboundaries --outputfile ./160620aledunittest//Pan81_subset_20genesymbols_codingexons_live.bed | ||
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| Python version: 2.7 (r27:82500, Oct 25 2012, 12:29:43) | ||
| [GCC 4.4.6 20110731 (Red Hat 4.4.6-3)] | ||
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| getopt module file path: /apps/python/2.7/lib/python2.7/getopt.pyc | ||
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| os module file path: /apps/python/2.7/lib/python2.7/os.pyc | ||
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| pd class file path: /apps/python/2.7/lib/python2.7/site-packages/pandas/__init__.pyc | ||
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| cruzdb module file path: /apps/python/2.7/lib/python2.7/site-packages/cruzdb/__init__.pyc |
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c4dcb1dThere was a problem hiding this comment.
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@kevjp and I ran unit test together. new script passed all tests - ok to adopt