| Previous changeset 0:37b4b4f59084 (2017-01-20) |
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Commit message:
planemo upload for repository https://github.com/Yating-L/psltobigpsl.git commit 517f74861bea50f74aa36e15cf3239bbcd353e4f-dirty |
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modified:
psltobigpsl.xml |
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added:
test-data/Gallus_gallus_RefSeq.cds test-data/Gallus_gallus_RefSeq.fa test-data/amaVit1_Gallus_gallus.psl test-data/out.bigpsl test-data/out_both.bigpsl test-data/out_cds.bigpsl test-data/out_fa.bigpsl |
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| diff -r 37b4b4f59084 -r 7cd07dd27927 psltobigpsl.xml --- a/psltobigpsl.xml Fri Jan 20 17:00:09 2017 -0500 +++ b/psltobigpsl.xml Wed Apr 12 17:38:51 2017 -0400 |
| [ |
| @@ -1,23 +1,90 @@ <tool id="pslToBigPsl" name="pslToBigPsl" version="0.1.0"> <requirements> - <!-- Requires Conda --> - <requirement type="package" version="0.1.0">psltoBigPsl</requirement> </requirements> <stdio> <exit_code range="1:" /> </stdio> <command><![CDATA[ - $__tool_directory__/pslToBigPsl $input stdout | sort -k1,1 -k2,2n > $output + $__tool_directory__/pslToBigPsl + '${input}' + #if $add_input.input_type == "both" + -cds='${input_cds}' + -fa='${input_fa}' + #elif $add_input.input_type == "fa" + -fa='${input_fa}' + #elif $add_input.input_type == "cds" + -cds='${input_cds}' + #end if + output + && sort -k1,1 -k2,2n output > '${output_sorted}' ]]></command> <inputs> <param name="input" label="Psl file" type="data" format="psl" /> + <conditional name="add_input"> + <param name="input_type" type="select" label="Provide FASTA and CDS files"> + <option value="no">No</option> + <option value="both">Provide both FASTA and CDS files</option> + <option value="fa">Provide FASTA file</option> + <option value="cds">Provide CDS file</option> + </param> + <when value="both"> + <param name="input_fa" type="data" format="fasta" label="Input FASTA file" /> + <param name="input_cds" type="data" format="tabular" label="Input CDS file" /> + </when> + <when value="fa"> + <param name="input_fa" type="data" format="fasta" label="Input FASTA file" /> + </when> + <when value="cds"> + <param name="input_cds" type="data" format="tabular" label="Input CDS file" /> + </when> + <when value="no"> + </when> + </conditional> </inputs> <outputs> - <data name="output" format="bed" /> + <data name="output_sorted" format="bed" /> </outputs> + <tests> + <test> + <param name="input" value="amaVit1_Gallus_gallus.psl" /> + <param name="input_type" value="no" /> + <output name="output_sorted" value="out.bigpsl" /> + </test> + <test> + <param name="input" value="amaVit1_Gallus_gallus.psl" /> + <param name="input_type" value="fa" /> + <param name="input_fa" value="Gallus_gallus_RefSeq.fa" /> + <output name="output_sorted" value="out_fa.bigpsl" /> + </test> + <test> + <param name="input" value="amaVit1_Gallus_gallus.psl" /> + <param name="input_type" value="cds" /> + <param name="input_cds" value="Gallus_gallus_RefSeq.cds" /> + <output name="output_sorted" value="out_cds.bigpsl" /> + </test> + <test> + <param name="input" value="amaVit1_Gallus_gallus.psl" /> + <param name="input_type" value="both" /> + <param name="input_fa" value="Gallus_gallus_RefSeq.fa" /> + <param name="input_cds" value="Gallus_gallus_RefSeq.cds" /> + <output name="output_sorted" value="out_both.bigpsl" /> + </test> + </tests> <help><![CDATA[ Transform a Psl format file to a Bed format file. Input: Psl File Ouput: BigPsl File ]]></help> + <citations> + <citation type="bibtex">@article{kent2002blat, + title={BLAT—the BLAST-like alignment tool}, + author={Kent, W James}, + journal={Genome research}, + volume={12}, + number={4}, + pages={656--664}, + year={2002}, + publisher={Cold Spring Harbor Lab} + }</citation> + </citations> </tool> \ No newline at end of file |
| b |
| diff -r 37b4b4f59084 -r 7cd07dd27927 test-data/Gallus_gallus_RefSeq.cds --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/Gallus_gallus_RefSeq.cds Wed Apr 12 17:38:51 2017 -0400 |
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| @@ -0,0 +1,100 @@ +NM_001199713 95..1546 +NM_001199712 95..1618 +NM_001030697 100..2745 +NM_001277797 1..2943 +NM_001184757 1..468 +NM_205038 272..1336 +NM_204727 406..966 +NM_001031150 220..2043 +NM_204996 56..3379 +NM_001005808 216..1316 +NM_205405 26..4981 +NM_205387 19..312 +NM_001115017 48..2060 +NM_204843 170..1840 +NM_001347710 32..1513 +NM_001328355 99..1328 +NM_001328354 87..530 +NM_001278102 156..524 +NM_001278100 320..688 +NM_001278104 91..459 +NM_001006176 347..3118 +NM_001281486 21..248 +NM_001278545 42..728 +NM_001277657 250..774 +NM_001277490 21..818 +NM_001277477 81..569 +NM_001277476 81..569 +NM_001199231 141..365 +NM_001031013 121..822 +NM_001195562 1..2664 +NM_001194996 58..1314 +NM_001006577 58..1293 +NM_001145430 217..420 +NM_001110060 1..714 +NM_001044640 16..642 +NM_001030706 43..1413 +NM_001030974 38..1090 +NM_001031172 33..2396 +NM_001031536 99..3497 +NM_001012804 68..2092 +NM_001006355 64..684 +NM_204172 65..1531 +NM_204212 1..2751 +NM_001348012 162..2225 +NM_204182 61..1314 +NM_204788 86..1264 +NM_001347945 34..1248 +NM_204471 162..3470 +NM_001006211 40..792 +NM_001318995 35..826 +NM_001322804 30..2675 +NM_001257371 191..829 +NM_001292086 17..1990 +NM_204766 50..5863 +NM_001318982 36..1613 +NM_001318432 1..969 +NM_001317736 78..812 +NM_001305110 67..969 +NM_001305109 71..973 +NM_001305111 63..740 +NM_001305112 64..597 +NM_001305089 1..3510 +NM_205501 87..1487 +NM_001293169 122..2614 +NM_001030587 20..1669 +NM_001293103 1..1086 +NM_001290554 77..2845 +NM_205054 17..1168 +NM_001277841 51..1013 +NM_001277715 58..930 +NM_001277631 13..933 +NM_001277630 13..1053 +NM_001271966 144..521 +NM_001271965 144..524 +NM_001271964 144..560 +NM_001113708 75..491 +NM_001271936 95..484 +NM_001271894 50..1765 +NM_205450 39..530 +NM_204650 3..245 +NM_205307 71..2014 +NM_001257373 16..1005 +NM_001128828 191..3520 +NM_001252284 300..881 +NM_001006305 30..788 +NM_001024456 6..2228 +NM_001242604 191..2770 +NM_001004378 103..1056 +NM_001201399 152..346 +NM_204992 88..282 +NM_001199613 1..498 +NM_001199429 179..2224 +NM_001195561 16..540 +NM_001195424 13..636 +NM_001111014 216..2867 +NM_001001775 216..2867 +NM_001167726 113..1909 +NM_001167759 22..1290 +NM_001167758 22..1287 +NM_001163651 189..1229 |
| b |
| diff -r 37b4b4f59084 -r 7cd07dd27927 test-data/Gallus_gallus_RefSeq.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/Gallus_gallus_RefSeq.fa Wed Apr 12 17:38:51 2017 -0400 |
| b |
| b'@@ -0,0 +1,4595 @@\n+>NM_001199713\n+cccttcctcttccttcctcctcctcctcccccttccctccctgccccccc\n+aacaccgaagggaagagacaattctcctccgagcagcagcaaacatgatg\n+gcggcagctcccatccagcagaacgggactcacaccggggttcccataga\n+cctggacccgccggactcccggaaaagaccgctggaagccccccccgaag\n+cgggcagcaccaagaggaccaacacgggcgaggatggccaatattttcta\n+aaggtcctcatacctagttatgctgctggatctataattgggaagggagg\n+acagacaattgttcagttgcagaaagagaccggggccaccatcaagctgt\n+ctaaatccaaagatttttacccaggtactacggagcgcgtgtgtctgatc\n+cagggaacagttgaagcactaaatgcagttcatggcttcattgcagagaa\n+gattcgagaaatgcctcaaaatgtggccaagacagagcctgtcagcatcc\n+tacaacctcagaccactgttaatccagaccgcatcaaacaagtaaagatt\n+atagttcccaacagcacagcaggtctgataatagggaagggaggtgctac\n+agtgaaggctataatggagcagtcaggggcttgggtgcagctttcccaga\n+aacctgatgggatcaacttgcaagagagggttgtcactgtgagtggagaa\n+cctgaacaaaaccgaaaagctgtcgaacttatcatccagaagatacaaga\n+ggatccacagagtggcagctgtctcaatatcagttatgccaatgtcacag\n+gtccagtggccaattccaatccaaccggatctccttatgcaaacactgct\n+gaagtgttaccaactgctgcagctgctgcagggctattaggacatgctaa\n+ccttgctggagtggcagcctttccagcagttttatctggctttacaggca\n+atgacctggtggccatcacctctgcacttaatacattagccagctatgga\n+tataatctcaatacattaggtttaggcctaagtcaggcagcagctacagg\n+ggctttggctgcagcagctgccagtgccaacccagcagcagcagcagcca\n+acttgttggccacctatgcgagtgaagcctcagccagtggcagcactgct\n+ggtggtacggcggggacatttgcattaggtagcctggctgctgctactgc\n+tgcaaccaatggatattttggagctgcttctcccctagctgccagtgcca\n+tcctaggaacagaaaaatccacagatggatcaaaggatgtagttgaaata\n+gcagtgccagaaaacttagttggtgcaatacttggaaaaggagggaaaac\n+attagttgaataccaggagttgactggtgcaaggatacagatctctaaaa\n+agggagaattcgtacctggcacaagaaatcgcaaggtaaccattactgga\n+acaccagctgcaacccaggccgcacagtatttaattacacaacggatcac\n+atatgagcaaggagttcgggctgccaatccacagaaagtgggttgagagc\n+ccctgttaaacatgagattgttttaacccctccttaccctattttcaaga\n+aggatgtactgtactttgcagaagtgaagtttttctgttattaatatata\n+attatgcaaatgaatgcgactatgttgacaatgtgtatatgtaaatataa\n+tgtgttttaccagatgtttcatagagagaattttttcttgatctgttttg\n+ttctctatactttgcttgtgtatatttgtcagaggtgtttctagtgtaag\n+atttaagcctgccattttaccagcattattgtagtttaatgattgaatgt\n+agacagggatatgcgtatagttttcagtattagttctagataacactaaa\n+ttaactactgttaggttgggtatggtggggtcagtgacctaaaatggagt\n+gaggccaaagcactgtcatgtcagtcttacttcctgcttagggcacagtg\n+aagtaggaaacaatattttgaaaataagttttaaaatttaaaatgatcaa\n+aaagcaatatagttgcataaaagcactgtaaaatatttaaaaaggttaaa\n+actgtggaaaattatattggtaagtttacagatcaataaaagcacctgtt\n+ctccatctgaactagacaatggaaataatgctgcatgctggccatggccc\n+attcttcaccatttgtaagttcaacaaaagttctcacatggagtcccacc\n+tctaactgaggtttgtacatttgtttttaagcactgaaatcactactgat\n+cccatcgcctggccagtagaacagtcattactccattaacattctcactg\n+tttagacacataactgtggtacagtgtattggaaattttatatacaaaaa\n+gtgaaagtgccaacaaattattgatagctgataatgtttcattatctgca\n+actgcttgataagtatgttgcattttaagagcttataattgtgtataatt\n+tgttaacactagaaacctattagtattgtgaatgtagattttactgtgaa\n+gctatctgtgatttagctgtttgctcccatgaaggagtctttgcagcatg\n+gcgctagcagccaatgcagtttctaatactcagtaatttgcatgttttgt\n+ggagcatttttatgtcaccaaccagacagtatttcctgcatgcttattta\n+gaagaggcagttttccttgagaggtagtggtctacctttgccaggctttt\n+tgacaggtcatttcagagtaagcctttgttcccaagacccaacaactgtc\n+accctcttctgtacctctcctgagtgccaactgcccaggccattgaccca\n+ccatctgttaacctctgagtttgcccgctcaaggccactcataggggcat\n+ccataaccaagcacctcctcatgctgtgcatgcagtcttaaattcaatgg\n+acaaaaataaaatgctggctacctctggatcatctggctgagcaactgaa\n+tttcaaaagagaattacttccatctcaacttcaacccattgattacgtcc\n+atcctagcaagctaaatggcatcccagctgctcctttctgtgcaaccaat\n+taaagaacaatgagtgtgatgctccatgtctgaatttcgtccagcctctc\n+tctgaactgtgatctttgtcctcatgaactttcccttttgttcattgaac\n+tatatggactcttcatttcatattgatttactgtgcaatttacttttgga\n+cattgagaacttgaaataattccctgatcccttcccccttcactattaat\n+aactcatttctgtcaaactgtaagagtagactcattttttttagttttta\n+acattggattgttatttcatttagagttctctatctctaaatatttaatt\n+tagagaatgattaaaaagggaatgatatgcttgtttaaaatgaaagagaa\n+aagctgtagtaaactgtgttacttggtaatgactatttatcgtcgatact\n+ctgtagctgtgtaagttttgacaaatagtgtatctcgtgaaatcagtggt\n+tagcattgccgctattatatttactcattttatcattataaatgtgctta\n+gttcatcatgtag\n+>NM_001199712\n+cccttcctcttccttcctcctcctcctcccccttccctccctgccccccc\n+aacaccgaagggaagagacaattctcctccgagcagcagcaaacatgatg\n+gcggcagctcccatccagcagaacgggactcacaccggggttcccataga\n+cctggacccgccggactcccggaaaagaccgctg'..b'tgtag\n+cataagtaaaccttcaaatgagatgccatagcttcttccctgctcagtgt\n+tgcatttaggcgtacagaaaagtttttttccaataaaacgaggacagggt\n+gggctgtggccccaggaaagcacactgaccgcagtctcccattccctcgg\n+gccgtttgcagctgtggcagcctctgcctcacatgcagcacggctgcctg\n+cccagaggctgcacaagcaggggcagagcattgccctgacacggctctgc\n+ctcacctcaaccctcaagcacgcggcattcccagcagcagcagcagcaca\n+tccacctgtgcccacgcagcacggggtcaggaacacgcggggactgctat\n+tgaggggtacatacagcatctaagtgctggtttggaccttttgtgaaatg\n+aatgagagctgcaatcttatacttttagtgttttaaatcagcttttactc\n+ctttttaacacaagaataaacactaaatgtggacagacaaa\n+>NM_001167758\n+cggcccggcctgacccaggggatgcctgaaaggcaagggaaggacagtga\n+aagccatgtcagcagcagctgtaccagcaccagcaactcagttgcttgct\n+ttggacagtatcaatatacagcaaatgaatatcaagccatccagcatgct\n+cttcgtcagaaactgggtccagagtatatcagcagtcggcaagctggggg\n+aggacaaaaggtctgttacattgagggtcacaaggtaatcagtctggcca\n+atgagatgtttggcttcaatggctgggctcattcagtcactcaacagaat\n+gttgactttgttgatctcaacaacggcaggttctatgtgggggtctgtgc\n+attcgtgaaagtgcagcttaaggacggctcataccatgaagatgtgggct\n+atggagtcagtgaaggcttgaagtccaaggccttgtccttagaaaaggca\n+agaaaggaggcagtaacagatggactgaagagggcgctcaagtgctttgg\n+gaatgctcttgggaactgcatcctagacaaagactacctacaagcagtta\n+ataagcttccacgtcagatgccccctgagttagatctggtgaaaactaaa\n+agacaggactatgagcctgaaatagagaaagcaaggtacgacggctgttt\n+ggaaaggcagaacccaggatggagacaacagtgtgaaacggcaccaactt\n+gtaagcccactcacacagaggcttccggagtgacagaagatcagaagcag\n+ccaagcagttctggaaatacagattccccagctgttgagtgtgatgccac\n+gtatcagcggaaactgcgacaaaagcagctgcagcaacagttctgggaac\n+agatggaaaagagacgtcaggttaaggaagttactcccagcagcaaacag\n+gcaacagccaatcctcctgtaaaacacagcactccggcagcagtacagca\n+ggaactggcaatagaagaagagttctttgcagatgatcttgaactctggg\n+acatttccttggagaccaccgaccttaacaagttgatgtgtcacaaagca\n+gcaggctcaccagcagcacagcagccccccgagacgccccacagacgtca\n+ccagatgacaactcgtaacaggacgcctcagagaatgcattatcacaaac\n+cgcctgtgaggtttgcacagttgcagccatctgctgctctcacaagcaac\n+agccacggtgccaaccaacgcacaccagagcacagcccttacaggagaag\n+tcaaagctggaagaagcggaggctagaacccacataggacacgtggtggc\n+atcattacctacatgctggattacatcataagactgcagttggctgctca\n+aagtacgtgaggaagcttcatctattaatagattgtcctaaagcaacaca\n+gaatagccagagagacacagccagcaagaacttcatgtgctttgggttta\n+ttacatagtccagatttttttttctataaacacacaatcatttgtgctcc\n+tgcacaactcgtggctgttttacaaataatttgcctgagaattgtagcat\n+aagtaaaccttcaaatgagatgccatagcttcttccctgctcagtgttgc\n+atttaggcgtacagaaaagtttttttccaataaaacgaggacagggtggg\n+ctgtggccccaggaaagcacactgaccgcagtctcccattccctcgggcc\n+gtttgcagctgtggcagcctctgcctcacatgcagcacggctgcctgccc\n+agaggctgcacaagcaggggcagagcattgccctgacacggctctgcctc\n+acctcaaccctcaagcacgcggcattcccagcagcagcagcagcacatcc\n+acctgtgcccacgcagcacggggtcaggaacacgcggggactgctattga\n+ggggtacatacagcatctaagtgctggtttggaccttttgtgaaatgaat\n+gagagctgcaatcttatacttttagtgttttaaatcagcttttactcctt\n+tttaacacaagaataaacactaaatgtggacagacaaa\n+>NM_001163651\n+gagactccgtcggaatcggtgctccggggagagctccgcagcttttcctg\n+gctgagctatacttgaagcgactgaacttggcaggagctggggcttaaag\n+cagcaccggagctgggctggtttcttcccaacttgtctgagcaagagcag\n+gtgctttggagcaacgagagctgcggtgcggctgtgccatggcagcggtg\n+gtggcagagaagctcagccgcctcttcatcagcgtgcgccaggtccccca\n+gctgctggcccccccggtgcccaccaccgtcagcagctccgaggtgccga\n+gggttttctggaagccttacatccacaccggctaccgcccggtgcaccaa\n+acctggcgctattacttctcgacgctcttccagcaacacaacgaagccat\n+caacgtgtggacccacctggtggccacgctgatcctgctgctgcgcttcc\n+agcagctctcccagagggtggattttgggcaggacccgcacgcccagccg\n+ctcctcatcatcatcacggcatccatcacctacctgacgttcagcacgct\n+cgctcacctcctgcaggctaagtccgagttctggcactacagcttcttct\n+tcatggactacgtgggggtggccatctaccagtatggcagtgctctggtg\n+cactactactatgccatcgagcccagctggcacgagaagatccagggctt\n+cttcatgcccacagctgcgctgctggcctggctgtcgtgtgcaggctcat\n+gctacgccaagttccgctaccatcagtcagcagggctgctgggccggctg\n+tgccaggagatgccctcaggcctggcctacctgctggatatcagccctgt\n+tgtgcaccgcatctgcaccgcatcacctgcggagcgcacagatccggccc\n+tgctgtaccacaagtgccaggtgctgttcttcctcatcggtgcctttttt\n+ttctcccatccttacccagagaagttgcttcccgggaaatgctacttctt\n+tgggcaaagccatcagatcttccatgtcttcctggtgctttgcactctgg\n+cacagatcgaggccgtggtgctggactatgagtccaggcggcacatctac\n+tcctcgctgcagggtgacctggcgcaccacttctctgccctgtgtgtctt\n+cactgtgacctgctccgtgctcacggctgcatacatggcacggaaggtga\n+gggacaaactgagcttcaaagaagattgagatttggggcagagtggggga\n+taccatggccaaagctgcatgctccaagga\n' |
| b |
| diff -r 37b4b4f59084 -r 7cd07dd27927 test-data/amaVit1_Gallus_gallus.psl --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/amaVit1_Gallus_gallus.psl Wed Apr 12 17:38:51 2017 -0400 |
| b |
| @@ -0,0 +1,12 @@ +2134 377 0 62 6 361 28 33978 ++ NM_001006176 3248 296 3230 LMAW01000001.1 10443977 10027590 10064141 29 110,48,10,76,75,152,66,51,87,83,55,56,148,96,63,24,177,107,83,145,109,83,145,90,117,129,68,93,27, 296,406,454,502,578,653,844,910,961,1048,1131,1186,1242,1390,1486,1609,1741,1918,2025,2108,2253,2362,2445,2590,2680,2797,2926,3034,3203, 10027590,10031154,10031353,10031517,10033261,10033696,10034454,10035646,10043484,10043794,10059668,10059824,10059973,10060798,10060979,10061265,10061487,10061740,10061947,10062143,10062365,10062584,10062743,10063001,10063188,10063383,10063616,10063806,10064114, +1247 370 0 44 6 280 17 96639 +- NM_001012804 4592 121 2062 LMAW01000001.1 10443977 517465 615765 18 119,32,74,112,2,87,150,114,39,171,3,94,58,142,81,107,137,139, 121,240,272,355,467,469,598,757,1066,1129,1300,1303,1397,1455,1597,1679,1786,1923, 9828212,9828431,9869264,9881475,9881600,9882641,9893172,9893708,9899022,9904744,9904997,9908755,9909749,9911745,9915154,9915481,9920844,9926373, +420 114 0 0 4 99 3 7093 ++ NM_001031013 971 69 702 LMAW01000002.1 5883884 3610886 3618513 5 33,66,21,276,138, 69,138,232,285,564, 3610886,3610955,3617941,3618099,3618375, +2710 404 0 198 24 2053 34 11593 +- NM_001292086 6644 10 5375 LMAW01000003.1 4188689 2820233 2835138 37 64,727,107,5,90,146,87,93,135,137,171,93,72,90,69,90,23,34,9,72,125,70,106,21,23,161,26,29,93,15,45,18,11,12,54,162,27, 10,74,801,908,913,1003,1149,1236,1329,1464,1617,1792,1885,2049,2163,2350,2918,3036,3070,3366,3445,3576,3647,3794,3985,4008,4236,4263,4476,4603,4688,4742,4882,4941,5031,5113,5348, 1353551,1355131,1356116,1356798,1356971,1357445,1359020,1359444,1359816,1360523,1360971,1361443,1365082,1365245,1365351,1365525,1366096,1366220,1366255,1366474,1366549,1366674,1366749,1366889,1367081,1367105,1367332,1367358,1367558,1367688,1367786,1367837,1367979,1368029,1368113,1368194,1368429, +200 50 0 0 0 0 1 24 +- NM_001292086 6644 481 731 LMAW01000003.1 4188689 2832850 2833124 2 110,140, 481,591, 1355565,1355699, +182 48 0 20 1 24 0 0 +- NM_001292086 6644 508 782 LMAW01000003.1 4188689 2832901 2833151 2 102,148, 508,634, 1355538,1355640, +92 25 0 0 0 0 1 183 +- NM_001292086 6644 562 679 LMAW01000003.1 4188689 2832851 2833151 2 43,74, 562,605, 1355538,1355764, +49 11 0 0 0 0 0 0 +- NM_001292086 6644 619 679 LMAW01000003.1 4188689 2833085 2833145 1 60, 619, 1355544, +3724 1107 0 326 14 609 44 22663 ++ NM_204766 5992 49 5815 LMAW01000002.1 5883884 103604 131424 45 51,78,132,3,152,2,29,75,90,63,1,95,81,3,136,119,150,2,169,180,123,48,90,117,123,134,241,261,177,146,90,72,267,129,81,2,196,348,116,193,106,123,177,99,87, 49,154,256,388,391,543,545,574,691,781,844,845,967,1048,1051,1187,1306,1456,1458,1627,1807,1960,2008,2098,2215,2338,2472,2713,2974,3151,3298,3388,3493,3778,3943,4024,4026,4222,4696,4812,5051,5212,5335,5608,5728, 103604,104407,107764,107909,108002,108233,108257,109261,112047,112967,113036,113148,114257,114391,114866,116183,116438,116593,116908,117767,118030,118682,120119,120672,121329,122185,122724,123518,123945,124449,124904,125793,125898,126790,127405,127543,127717,128055,129238,129442,129761,130020,130254,131103,131337, +537 234 0 42 7 1113 7 34987 ++ NM_204766 5992 262 2188 LMAW01000001.1 10443977 9729332 9765132 8 108,153,66,93,39,171,99,84, 262,388,574,688,1414,1459,1981,2104, 9729332,9734141,9751019,9755220,9762042,9762555,9764665,9765048, +189 73 0 0 4 773 4 13674 ++ NM_204766 5992 553 1588 LMAW01000003.1 4188689 2559457 2573393 5 84,66,33,13,66, 553,739,844,1457,1522, 2559457,2563244,2563349,2570767,2573327, +143 58 0 19 3 659 4 9089 ++ NM_204766 5992 574 1453 LMAW01000003.1 4188689 259524 268833 5 27,80,11,66,36, 574,700,780,847,1417, 259524,261255,261529,262379,268797, |
| b |
| diff -r 37b4b4f59084 -r 7cd07dd27927 test-data/out.bigpsl --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/out.bigpsl Wed Apr 12 17:38:51 2017 -0400 |
| b |
| @@ -0,0 +1,12 @@ +LMAW01000001.1 517465 615765 NM_001012804 1000 - 517465 615765 0 18 139,137,107,81,142,58,94,3,171,39,114,150,87,2,112,74,32,119, 0,5531,10924,11277,14625,16705,17663,21512,21597,27451,32690,33190,43784,44910,44925,57174,98049,98181, 121 2062 - 4592 2530,2669,2806,2914,2995,3137,3195,3289,3292,3487,3721,3844,4036,4123,4125,4246,4320,4352, 10443977 1247 370 0 44 +LMAW01000001.1 9729332 9765132 NM_204766 1000 + 9729332 9765132 0 8 108,153,66,93,39,171,99,84, 0,4809,21687,25888,32710,33223,35333,35716, 262 2188 + 5992 262,388,574,688,1414,1459,1981,2104, 10443977 537 234 0 42 +LMAW01000001.1 10027590 10064141 NM_001006176 1000 + 10027590 10064141 0 29 110,48,10,76,75,152,66,51,87,83,55,56,148,96,63,24,177,107,83,145,109,83,145,90,117,129,68,93,27, 0,3564,3763,3927,5671,6106,6864,8056,15894,16204,32078,32234,32383,33208,33389,33675,33897,34150,34357,34553,34775,34994,35153,35411,35598,35793,36026,36216,36524, 296 3230 + 3248 296,406,454,502,578,653,844,910,961,1048,1131,1186,1242,1390,1486,1609,1741,1918,2025,2108,2253,2362,2445,2590,2680,2797,2926,3034,3203, 10443977 2134 377 0 62 +LMAW01000002.1 103604 131424 NM_204766 1000 + 103604 131424 0 45 51,78,132,3,152,2,29,75,90,63,1,95,81,3,136,119,150,2,169,180,123,48,90,117,123,134,241,261,177,146,90,72,267,129,81,2,196,348,116,193,106,123,177,99,87, 0,803,4160,4305,4398,4629,4653,5657,8443,9363,9432,9544,10653,10787,11262,12579,12834,12989,13304,14163,14426,15078,16515,17068,17725,18581,19120,19914,20341,20845,21300,22189,22294,23186,23801,23939,24113,24451,25634,25838,26157,26416,26650,27499,27733, 49 5815 + 5992 49,154,256,388,391,543,545,574,691,781,844,845,967,1048,1051,1187,1306,1456,1458,1627,1807,1960,2008,2098,2215,2338,2472,2713,2974,3151,3298,3388,3493,3778,3943,4024,4026,4222,4696,4812,5051,5212,5335,5608,5728, 5883884 3724 1107 0 326 +LMAW01000002.1 3610886 3618513 NM_001031013 1000 + 3610886 3618513 0 5 33,66,21,276,138, 0,69,7055,7213,7489, 69 702 + 971 69,138,232,285,564, 5883884 420 114 0 0 +LMAW01000003.1 259524 268833 NM_204766 1000 + 259524 268833 0 5 27,80,11,66,36, 0,1731,2005,2855,9273, 574 1453 + 5992 574,700,780,847,1417, 4188689 143 58 0 19 +LMAW01000003.1 2559457 2573393 NM_204766 1000 + 2559457 2573393 0 5 84,66,33,13,66, 0,3787,3892,11310,13870, 553 1588 + 5992 553,739,844,1457,1522, 4188689 189 73 0 0 +LMAW01000003.1 2820233 2835138 NM_001292086 1000 - 2820233 2835138 0 37 27,162,54,12,11,18,45,15,93,29,26,161,23,21,106,70,125,72,9,34,23,90,69,90,72,93,171,137,135,93,87,146,90,5,107,727,64, 0,100,289,415,466,601,625,753,805,1069,1098,1190,1352,1546,1601,1712,1782,1910,2192,2202,2337,2841,3036,3121,3302,6920,7314,7796,8505,8919,9349,10865,11395,11653,12233,12598,14841, 10 5375 - 6644 1269,1369,1559,1691,1751,1884,1911,2026,2075,2352,2382,2475,2636,2829,2891,2998,3074,3206,3565,3574,3703,4204,4412,4505,4687,4759,4856,5043,5180,5315,5408,5495,5641,5731,5736,5843,6570, 4188689 2710 404 0 198 +LMAW01000003.1 2832850 2833124 NM_001292086 1000 - 2832850 2833124 0 2 140,110, 0,164, 481 731 - 6644 5913,6053, 4188689 200 50 0 0 +LMAW01000003.1 2832851 2833151 NM_001292086 1000 - 2832851 2833151 0 2 74,43, 0,257, 562 679 - 6644 5965,6039, 4188689 92 25 0 0 +LMAW01000003.1 2832901 2833151 NM_001292086 1000 - 2832901 2833151 0 2 148,102, 0,148, 508 782 - 6644 5862,6034, 4188689 182 48 0 20 +LMAW01000003.1 2833085 2833145 NM_001292086 1000 - 2833085 2833145 0 1 60, 0, 619 679 - 6644 5965, 4188689 49 11 0 0 |
| b |
| diff -r 37b4b4f59084 -r 7cd07dd27927 test-data/out_both.bigpsl --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/out_both.bigpsl Wed Apr 12 17:38:51 2017 -0400 |
| b |
| b'@@ -0,0 +1,12 @@\n+LMAW01000001.1\t517465\t615765\tNM_001012804\t1000\t-\t517465\t615765\t0\t18\t139,137,107,81,142,58,94,3,171,39,114,150,87,2,112,74,32,119,\t0,5531,10924,11277,14625,16705,17663,21512,21597,27451,32690,33190,43784,44910,44925,57174,98049,98181,\t121\t2062\t-\t4592\t2530,2669,2806,2914,2995,3137,3195,3289,3292,3487,3721,3844,4036,4123,4125,4246,4320,4352,\tggttcggcggccgccggacggttgcgtgacgaggcgggcagatccttctggatacgagcggagagccatggccgacgtgttcccgggctccgagcccggcgcggccccggacgcggcgcggcgctttgctcgcaaaggggccctgaggcagaagaacgtgcacgaggtgaaggagcacaaattcatcgcgcgcttcttcaagcagcccaccttctgcagccactgcaccgacttcatctggggatttgggaaacaaggatttcagtgccaagtttgctgttttgtggttcataagagatgccatgagttcgttaccttctcctgtcctggagctgacaagggacctgacaccgatgaccccaggagcaagcacaaatttaagatccacacctatgggagcccaaccttctgtgaccactgtgggtcccttctttatgggctcctacaccaagggatgaaatgtgacacttgtgatatgaatgtgcataagcaatgtgtgataaacgtcccgagcctctgtggcatggatcacactgagaaaaggggaaggatttatctgaaggctgaagtcactggtgacaaactggaagtaacagtgcgagaagcaaaaaacctaattcccatggatccaaatgggctttcagatccttatgttaaactgaaacttatcccagatcccaagaatgaaagtaaacaaaaaacaaaaaccttccgttctaccctgaatccacactggaatgagtcattcacatttaaattaaaacctacagacaaagatcgacggctctctgtagaggtctgggactgggatcgaacaaccaggaatgattttatgggctctctttcatttggggtgtcagagctcatgaagatgccagccagtggatggtacaagctgctgaatcaagaagaaggtgaatattataatgttccaattccagatgctgacgaggatggaaatgcagagctccggcagaagttcgagaaagccaaacttgggccagctggtaacaaagtcattactccatcagaagacaggaattcaagtgtgccatccaacaatctggacagggtgaaactgacagatttcaactttcttatggttcttggaaaaggaagctttggaaaggtgatgctggcggacaggaagaatacagaggagctctatgcaatcaaaatactgaaaaaagatgtggtgattcaggatgatgatgttgagtgtacaatggttgaaaaacgagtgctagcactgcaggataaaccaccattcctgacacagcttcactcatgtttccaaacagttgaccgcctgtattttgttatggagtatgtgaatggtggggatctcatgtaccacattcagcaagtaggaaaatttaaggagccacaagcagtgttctatgcagctgagatctcagttgggttattctttctccataatagagggattgtttatagagatctgaaattggataatgtgatgttggattcagaaggacacattaaaattgctgactttggaatgtgcaaagaacatatgttagatggagtaacaaccaggaccttctgtggcaccccagattacatcgcaccggagatcattgcttatcagccctatgggaagtctgtggattggtgggcatatggagtgctgctctacgagatgttagctggccagcctccatttgatggagaagatgaagatgaacttttccagtccataatggaacataatgtttcctatccaaaatcgctgtccaaagaagctgtctccatctgcaaggggctaatgactaaacatcccgcaaagcgccttggctgcggcctcgaaggtgaaagagacatcagggaacacgctttcttcaggagaattgactgggagaaactggaaaacagagagatccagccacctttcaagcccaaagtgtgtggcaaaggtgctgaaaacttcgataaattcttcacgcgaggacagccggtgttgaccccgccagaccagctggtcattgctaacatagatcaatccgattttgaagggttctcctatgtcaacccccagtttgtacatcccctcctagaaaatgtagcatgaaacagcagaacaggaacaaatcccgcagtggggaacggttcttaaccctaaaatttttaggtttttgccttgattccgtttgggcctgaaaattatagggttagaaagtgtaagatgggagaaaggccacttagtgaggattttgactttgcaaccaaaacgtcttaatgggagataaattagcatacagtgcccatttctcctactagaagtcaccatgactcgtctgaagttccccatttttggtacattctgtagttctgtagctccccgctgtccttttgctccgtttttcactccgctgctgttacaaataatccaagacccgacctgagaagcacctccagtactcagtccttgcaggggaccagctccccgctcctatgggcaccatggggagagcagcgcacgggactggagagcgccggggaggagaggcattgcagaatgtggtggaaagcagttgttaccaaaacccgacaaataaatacgagttgggagtgggagggcaggggggatgaaatcctattagagcccaaagcttcgtgaaccaatcctgtaagcaacaccaaatttaaacacgctccggcagtggccagatctctagatctttgctaagtagcatgtgataaactcgagggtgaagttttgtctttaataataataataatagtaataattttaataatatttttgtgaattttaatctccgtgagattattctgtgatccagggtgccattgtttgttcagttgatttcatttgcaccactcctcaagctcactgttgactggttctaataacaccaacgttttactatgagatttgttaacctggaatgtaaaacagaactgtaatcccttacatcttatttacttgtgtgtgttgtagtctgcagtatagggcagtaaattgaaggaagtattgtgtatgctaaattaacaaaaacgcagtcccaggtgactccctgatttttccagaacaactcatgaaaatgaattgagatttagttctacagtaatcaattctaactcagaaaacttggggctgtacaataaccaagcttgaaagaagcacctgaagcttgttttattggcagaatggaatttaacacattttacatacgcttcatgcaatgaattttgcatgtttagtaataactcttaataataagagttaataataagcagttctatattgacattaccatatcaagcatacagagtattacaaaagttttataaaacaaattgtgctttatttgtggaagtacttgttctgaacgacatcatttaggtttagctcaatgttttcttgctgttgttttgggttgtttttttctagtttttggatattgttaatgacttagggtatcatctgtttttttaaacgtagatctacttttaaacaataattgctacctgcaggttttatacaagtttcaattaggcttttgtttcatgtctgctgattactgacagggaaagaaatagattttatttgcaatgatgaacgctgtaattaatgcaatcttctcctctcctatct'..b'gaataatcacattagcgatggaactgtcaggatagaagcacttgtttatacaaaaccaacgaatttctgcaagttcatgaaaggcttctttaacaactgcagtgagccgccctgtgaatacatatcctgctaatagcattttgtaatctcatacaagccttatgatgcattttcctattgttctgggttggctgaaaagacagcggaggagaatattgtggacagagttattgctgcttttatgctatttttaaacaccttatttgattatgcaaatagcattgcaaaatgaggagaggctacaagaaatgtctcatcttttccactctttaagattatgtttcccacgtgtagtttcccttgttggtgagatagcatttccatgttatctatgttgttttttaactgccttttcacatagtcctagaaagcttgtgacttcatggaggtagcaggaagaaagcagaaagcatagcttaatgcctctttaaatgcattgagcggtgccatggaaagtttgctgagtggatttatgtttcgtaagataaagtagcttacagttatgtaagaataaatgttactcatctctctcctgcccagatgaattatgcttttctataaaaactgttgagttacagcttttaacctggctgtcttgcctttgaaatgtgtaattaggcaaacagtttactgaagtactctacctccatttttcttgcctggaaggtgtgggaagcattctagctgcagaggcacagagctctgcacgcattaatatattctgctcagcagctgactgcagtgtagacacttgcaaatatgaaaacaaagtgaaaaatgtctactctgaagtctgagtgcctgagaagctgttcttttgttgttgttgttgttgtttttgtacttgtttctaagagttcctgcctctcttccctgtgcagataaaacctttctccatctgctccaattttgagtaatcctcttaggttagacctctgctgggagtctggctcctcacatgtggttacctgcttttctgttgtaacctgctcaggaagaagccagctgtagaaaaagggagttgtttcttatgctatgtggttgctagactttcgtgtcaaagtctcccagatacctcttgagcagcaatgcaaagtgtatggaaactcaccaccatttcactgctgatgtgtttgcttaatgtcagtttaattaaagcattggttacttttactatattccaaagggtgaaaatgttttaatcactcttacaggtttgatgctgactaagcctttacttggtaagtgggctactttagcttccaaaaaggaggcttttgtggatttaaaagattaaaaggagtgtttttttctactgtcttcttttgtaaattgctcttctaaagtcttattaaaacatagaattttagaaagtgttttctcagcctaaattggtttaacaatcaccttttaattaaagtcacttgaacgaactttgtcttatccatagtatttgttgcttgtgagtgtggtgtacagttctgtttcactcataggcagtttttttgctctcccttttcccagcctccaagtatgtgacaattacttggaattgtttttcttacccaaatcagaaatatgaagctggaactaaagtgcgtaaggagaaggaaagaacaagtaggtgaactgtatttacttttgtacagactggccagagtacttcttccagaaaggttatgatttggacaatttccaaaaataaaaatctgtttgaagagctgataatgagctgagttttagattttctggctagtggtagagtgtaggatcagttgtcttgaaaccatcactgaaaggtgttcctagctatatagttttgttgtttcaggtatattgttcaactgtacgcttgccaattgcagaactggagttttctttctagcactgagtaacattctcttccatccttgccctgcaagttgacaccattttcatgctagaggcaagcctgatggatcaggggctgccctcagaagggtgcagctgcccatgcagtccttgtctctttctagcagcaggtttggcaatacctgcctggcttagctcagagtgaatttgctaaactcccaggaaactgattttctgctgtgctggagttttgtgccataggccagcagaactacttcattggccatgtgaacaaggtagccagctcagtaagttggcctggtcatgaggacatcaggggatatggcagaaggatgctctctttggcagaggtgtaaacttttacttgactgccttttgaaaacttagcttgaccctgcagaaggtagttgatagttttctactgctgtagctgcctcagctggcacactggtgtgtcggttgtgactggaggtggtgcaagaggtagaacaggacagttctgtgtgtggcagcaagttttaactcggctcagatgtgaaactgcagccacaggaatgtgttaaacatgagatggtgactttccagtgaagtcataggtatttatttctcagccagtgggcataggagcccatggtgtcggcccattctaatggagtgcttttctctaacagcttaatgctgctggtcaagctgagtgttactgagtgcatagagatggtcacatgggaaagaaagagagaattttgtttctgataaatgttcttttaatattagttataagaagttttacatattagatttgtgaaattcagctacgctgttgtaacacttagacacttgcctgtggcttgacttggaagtgcttgtggagagcaatgtgactaacacctcgtgttgcctagtgatgccctttcacttgagctggggtttttttagtgcctgtctggacatgaaagacttagagaaaagctgcaaacaagtgttgactgctagcttgtatctttaattgctttaaaactcgtgggcattctcatgaattatataagcttaagtagttgagaaaatgacataaaattaagtaaatccctgctgaaatcattctcagacagaatttgacaaaaaaaaatcctttcacaagtcttttttgacattttttttctaaaggattttttatggtttcaagactggactgatgcttggggggaaaaaggagttactgaagtggaagcttaactagaaagtttttatttgttgctttgttttctccattatttcgtgaagaattgagagactgtagagccagtttaccaacaaaagtaacctcatgtcttttgagttaggatgaaattttctgggaaagaatggcattcctgcagttattgatagccatggaatcatatatacactgtattcttcatatattgtcaattaaacataaataaaatcctaggaaatggtaaaagcatcaactatcacaccctcttttttctatcttatgactgaattaactttctgtgttttcatgcttttctcctcaaaacacttcataatgtaactggaaaagacacactaatcctagcgtgatgatctgtcagttaccttgtgggttttttcctctttgtctgtcagtgtaaaggtgtatgatagacattctgtacagaacgggctcttagaacaggatttgctgttgagctctacagtaaaccttttattttaattttgcatggatgctcaaggaccactctcattttcatatgtaaaggaaataaacttacgtttttggcaacggcagtaatcagcatctttccttcaggtgtttagtacacttgtacatagtgatcgtgtttgggaagttgtcctgcttggttggctgagggttgtattgtgagatgtgtaacctactatctctgtaagcccagtgctgttgctcgttgtatttaatgccagcagcatcaagttttgtttacaaatccggaatcaggtaactgtatttaaactatgtcagcttgtcatctcccagtcttatttttcagcttaaa\t17..1990\t4188689\t49\t11\t0\t0\n' |
| b |
| diff -r 37b4b4f59084 -r 7cd07dd27927 test-data/out_cds.bigpsl --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/out_cds.bigpsl Wed Apr 12 17:38:51 2017 -0400 |
| b |
| @@ -0,0 +1,12 @@ +LMAW01000001.1 517465 615765 NM_001012804 1000 - 517465 615765 0 18 139,137,107,81,142,58,94,3,171,39,114,150,87,2,112,74,32,119, 0,5531,10924,11277,14625,16705,17663,21512,21597,27451,32690,33190,43784,44910,44925,57174,98049,98181, 121 2062 - 4592 2530,2669,2806,2914,2995,3137,3195,3289,3292,3487,3721,3844,4036,4123,4125,4246,4320,4352, 68..2092 10443977 1247 370 0 44 +LMAW01000001.1 9729332 9765132 NM_204766 1000 + 9729332 9765132 0 8 108,153,66,93,39,171,99,84, 0,4809,21687,25888,32710,33223,35333,35716, 262 2188 + 5992 262,388,574,688,1414,1459,1981,2104, 50..5863 10443977 537 234 0 42 +LMAW01000001.1 10027590 10064141 NM_001006176 1000 + 10027640 10063890 0 29 110,48,10,76,75,152,66,51,87,83,55,56,148,96,63,24,177,107,83,145,109,83,145,90,117,129,68,93,27, 0,3564,3763,3927,5671,6106,6864,8056,15894,16204,32078,32234,32383,33208,33389,33675,33897,34150,34357,34553,34775,34994,35153,35411,35598,35793,36026,36216,36524, 296 3230 + 3248 296,406,454,502,578,653,844,910,961,1048,1131,1186,1242,1390,1486,1609,1741,1918,2025,2108,2253,2362,2445,2590,2680,2797,2926,3034,3203, 347..3118 10443977 2134 377 0 62 +LMAW01000002.1 103604 131424 NM_204766 1000 + 103604 131424 0 45 51,78,132,3,152,2,29,75,90,63,1,95,81,3,136,119,150,2,169,180,123,48,90,117,123,134,241,261,177,146,90,72,267,129,81,2,196,348,116,193,106,123,177,99,87, 0,803,4160,4305,4398,4629,4653,5657,8443,9363,9432,9544,10653,10787,11262,12579,12834,12989,13304,14163,14426,15078,16515,17068,17725,18581,19120,19914,20341,20845,21300,22189,22294,23186,23801,23939,24113,24451,25634,25838,26157,26416,26650,27499,27733, 49 5815 + 5992 49,154,256,388,391,543,545,574,691,781,844,845,967,1048,1051,1187,1306,1456,1458,1627,1807,1960,2008,2098,2215,2338,2472,2713,2974,3151,3298,3388,3493,3778,3943,4024,4026,4222,4696,4812,5051,5212,5335,5608,5728, 50..5863 5883884 3724 1107 0 326 +LMAW01000002.1 3610886 3618513 NM_001031013 1000 + 3610955 3618513 0 5 33,66,21,276,138, 0,69,7055,7213,7489, 69 702 + 971 69,138,232,285,564, 121..822 5883884 420 114 0 0 +LMAW01000003.1 259524 268833 NM_204766 1000 + 259524 268833 0 5 27,80,11,66,36, 0,1731,2005,2855,9273, 574 1453 + 5992 574,700,780,847,1417, 50..5863 4188689 143 58 0 19 +LMAW01000003.1 2559457 2573393 NM_204766 1000 + 2559457 2573393 0 5 84,66,33,13,66, 0,3787,3892,11310,13870, 553 1588 + 5992 553,739,844,1457,1522, 50..5863 4188689 189 73 0 0 +LMAW01000003.1 2820233 2835138 NM_001292086 1000 - 2823535 2835132 0 37 27,162,54,12,11,18,45,15,93,29,26,161,23,21,106,70,125,72,9,34,23,90,69,90,72,93,171,137,135,93,87,146,90,5,107,727,64, 0,100,289,415,466,601,625,753,805,1069,1098,1190,1352,1546,1601,1712,1782,1910,2192,2202,2337,2841,3036,3121,3302,6920,7314,7796,8505,8919,9349,10865,11395,11653,12233,12598,14841, 10 5375 - 6644 1269,1369,1559,1691,1751,1884,1911,2026,2075,2352,2382,2475,2636,2829,2891,2998,3074,3206,3565,3574,3703,4204,4412,4505,4687,4759,4856,5043,5180,5315,5408,5495,5641,5731,5736,5843,6570, 17..1990 4188689 2710 404 0 198 +LMAW01000003.1 2832850 2833124 NM_001292086 1000 - 2832850 2833124 0 2 140,110, 0,164, 481 731 - 6644 5913,6053, 17..1990 4188689 200 50 0 0 +LMAW01000003.1 2832851 2833151 NM_001292086 1000 - 2832851 2833151 0 2 74,43, 0,257, 562 679 - 6644 5965,6039, 17..1990 4188689 92 25 0 0 +LMAW01000003.1 2832901 2833151 NM_001292086 1000 - 2832901 2833151 0 2 148,102, 0,148, 508 782 - 6644 5862,6034, 17..1990 4188689 182 48 0 20 +LMAW01000003.1 2833085 2833145 NM_001292086 1000 - 2833085 2833145 0 1 60, 0, 619 679 - 6644 5965, 17..1990 4188689 49 11 0 0 |
| b |
| diff -r 37b4b4f59084 -r 7cd07dd27927 test-data/out_fa.bigpsl --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/out_fa.bigpsl Wed Apr 12 17:38:51 2017 -0400 |
| b |
| b'@@ -0,0 +1,12 @@\n+LMAW01000001.1\t517465\t615765\tNM_001012804\t1000\t-\t517465\t615765\t0\t18\t139,137,107,81,142,58,94,3,171,39,114,150,87,2,112,74,32,119,\t0,5531,10924,11277,14625,16705,17663,21512,21597,27451,32690,33190,43784,44910,44925,57174,98049,98181,\t121\t2062\t-\t4592\t2530,2669,2806,2914,2995,3137,3195,3289,3292,3487,3721,3844,4036,4123,4125,4246,4320,4352,\tggttcggcggccgccggacggttgcgtgacgaggcgggcagatccttctggatacgagcggagagccatggccgacgtgttcccgggctccgagcccggcgcggccccggacgcggcgcggcgctttgctcgcaaaggggccctgaggcagaagaacgtgcacgaggtgaaggagcacaaattcatcgcgcgcttcttcaagcagcccaccttctgcagccactgcaccgacttcatctggggatttgggaaacaaggatttcagtgccaagtttgctgttttgtggttcataagagatgccatgagttcgttaccttctcctgtcctggagctgacaagggacctgacaccgatgaccccaggagcaagcacaaatttaagatccacacctatgggagcccaaccttctgtgaccactgtgggtcccttctttatgggctcctacaccaagggatgaaatgtgacacttgtgatatgaatgtgcataagcaatgtgtgataaacgtcccgagcctctgtggcatggatcacactgagaaaaggggaaggatttatctgaaggctgaagtcactggtgacaaactggaagtaacagtgcgagaagcaaaaaacctaattcccatggatccaaatgggctttcagatccttatgttaaactgaaacttatcccagatcccaagaatgaaagtaaacaaaaaacaaaaaccttccgttctaccctgaatccacactggaatgagtcattcacatttaaattaaaacctacagacaaagatcgacggctctctgtagaggtctgggactgggatcgaacaaccaggaatgattttatgggctctctttcatttggggtgtcagagctcatgaagatgccagccagtggatggtacaagctgctgaatcaagaagaaggtgaatattataatgttccaattccagatgctgacgaggatggaaatgcagagctccggcagaagttcgagaaagccaaacttgggccagctggtaacaaagtcattactccatcagaagacaggaattcaagtgtgccatccaacaatctggacagggtgaaactgacagatttcaactttcttatggttcttggaaaaggaagctttggaaaggtgatgctggcggacaggaagaatacagaggagctctatgcaatcaaaatactgaaaaaagatgtggtgattcaggatgatgatgttgagtgtacaatggttgaaaaacgagtgctagcactgcaggataaaccaccattcctgacacagcttcactcatgtttccaaacagttgaccgcctgtattttgttatggagtatgtgaatggtggggatctcatgtaccacattcagcaagtaggaaaatttaaggagccacaagcagtgttctatgcagctgagatctcagttgggttattctttctccataatagagggattgtttatagagatctgaaattggataatgtgatgttggattcagaaggacacattaaaattgctgactttggaatgtgcaaagaacatatgttagatggagtaacaaccaggaccttctgtggcaccccagattacatcgcaccggagatcattgcttatcagccctatgggaagtctgtggattggtgggcatatggagtgctgctctacgagatgttagctggccagcctccatttgatggagaagatgaagatgaacttttccagtccataatggaacataatgtttcctatccaaaatcgctgtccaaagaagctgtctccatctgcaaggggctaatgactaaacatcccgcaaagcgccttggctgcggcctcgaaggtgaaagagacatcagggaacacgctttcttcaggagaattgactgggagaaactggaaaacagagagatccagccacctttcaagcccaaagtgtgtggcaaaggtgctgaaaacttcgataaattcttcacgcgaggacagccggtgttgaccccgccagaccagctggtcattgctaacatagatcaatccgattttgaagggttctcctatgtcaacccccagtttgtacatcccctcctagaaaatgtagcatgaaacagcagaacaggaacaaatcccgcagtggggaacggttcttaaccctaaaatttttaggtttttgccttgattccgtttgggcctgaaaattatagggttagaaagtgtaagatgggagaaaggccacttagtgaggattttgactttgcaaccaaaacgtcttaatgggagataaattagcatacagtgcccatttctcctactagaagtcaccatgactcgtctgaagttccccatttttggtacattctgtagttctgtagctccccgctgtccttttgctccgtttttcactccgctgctgttacaaataatccaagacccgacctgagaagcacctccagtactcagtccttgcaggggaccagctccccgctcctatgggcaccatggggagagcagcgcacgggactggagagcgccggggaggagaggcattgcagaatgtggtggaaagcagttgttaccaaaacccgacaaataaatacgagttgggagtgggagggcaggggggatgaaatcctattagagcccaaagcttcgtgaaccaatcctgtaagcaacaccaaatttaaacacgctccggcagtggccagatctctagatctttgctaagtagcatgtgataaactcgagggtgaagttttgtctttaataataataataatagtaataattttaataatatttttgtgaattttaatctccgtgagattattctgtgatccagggtgccattgtttgttcagttgatttcatttgcaccactcctcaagctcactgttgactggttctaataacaccaacgttttactatgagatttgttaacctggaatgtaaaacagaactgtaatcccttacatcttatttacttgtgtgtgttgtagtctgcagtatagggcagtaaattgaaggaagtattgtgtatgctaaattaacaaaaacgcagtcccaggtgactccctgatttttccagaacaactcatgaaaatgaattgagatttagttctacagtaatcaattctaactcagaaaacttggggctgtacaataaccaagcttgaaagaagcacctgaagcttgttttattggcagaatggaatttaacacattttacatacgcttcatgcaatgaattttgcatgtttagtaataactcttaataataagagttaataataagcagttctatattgacattaccatatcaagcatacagagtattacaaaagttttataaaacaaattgtgctttatttgtggaagtacttgttctgaacgacatcatttaggtttagctcaatgttttcttgctgttgttttgggttgtttttttctagtttttggatattgttaatgacttagggtatcatctgtttttttaaacgtagatctacttttaaacaataattgctacctgcaggttttatacaagtttcaattaggcttttgtttcatgtctgctgattactgacagggaaagaaatagattttatttgcaatgatgaacgctgtaattaatgcaatcttctcctctcctatct'..b'attaataagaataatcacattagcgatggaactgtcaggatagaagcacttgtttatacaaaaccaacgaatttctgcaagttcatgaaaggcttctttaacaactgcagtgagccgccctgtgaatacatatcctgctaatagcattttgtaatctcatacaagccttatgatgcattttcctattgttctgggttggctgaaaagacagcggaggagaatattgtggacagagttattgctgcttttatgctatttttaaacaccttatttgattatgcaaatagcattgcaaaatgaggagaggctacaagaaatgtctcatcttttccactctttaagattatgtttcccacgtgtagtttcccttgttggtgagatagcatttccatgttatctatgttgttttttaactgccttttcacatagtcctagaaagcttgtgacttcatggaggtagcaggaagaaagcagaaagcatagcttaatgcctctttaaatgcattgagcggtgccatggaaagtttgctgagtggatttatgtttcgtaagataaagtagcttacagttatgtaagaataaatgttactcatctctctcctgcccagatgaattatgcttttctataaaaactgttgagttacagcttttaacctggctgtcttgcctttgaaatgtgtaattaggcaaacagtttactgaagtactctacctccatttttcttgcctggaaggtgtgggaagcattctagctgcagaggcacagagctctgcacgcattaatatattctgctcagcagctgactgcagtgtagacacttgcaaatatgaaaacaaagtgaaaaatgtctactctgaagtctgagtgcctgagaagctgttcttttgttgttgttgttgttgtttttgtacttgtttctaagagttcctgcctctcttccctgtgcagataaaacctttctccatctgctccaattttgagtaatcctcttaggttagacctctgctgggagtctggctcctcacatgtggttacctgcttttctgttgtaacctgctcaggaagaagccagctgtagaaaaagggagttgtttcttatgctatgtggttgctagactttcgtgtcaaagtctcccagatacctcttgagcagcaatgcaaagtgtatggaaactcaccaccatttcactgctgatgtgtttgcttaatgtcagtttaattaaagcattggttacttttactatattccaaagggtgaaaatgttttaatcactcttacaggtttgatgctgactaagcctttacttggtaagtgggctactttagcttccaaaaaggaggcttttgtggatttaaaagattaaaaggagtgtttttttctactgtcttcttttgtaaattgctcttctaaagtcttattaaaacatagaattttagaaagtgttttctcagcctaaattggtttaacaatcaccttttaattaaagtcacttgaacgaactttgtcttatccatagtatttgttgcttgtgagtgtggtgtacagttctgtttcactcataggcagtttttttgctctcccttttcccagcctccaagtatgtgacaattacttggaattgtttttcttacccaaatcagaaatatgaagctggaactaaagtgcgtaaggagaaggaaagaacaagtaggtgaactgtatttacttttgtacagactggccagagtacttcttccagaaaggttatgatttggacaatttccaaaaataaaaatctgtttgaagagctgataatgagctgagttttagattttctggctagtggtagagtgtaggatcagttgtcttgaaaccatcactgaaaggtgttcctagctatatagttttgttgtttcaggtatattgttcaactgtacgcttgccaattgcagaactggagttttctttctagcactgagtaacattctcttccatccttgccctgcaagttgacaccattttcatgctagaggcaagcctgatggatcaggggctgccctcagaagggtgcagctgcccatgcagtccttgtctctttctagcagcaggtttggcaatacctgcctggcttagctcagagtgaatttgctaaactcccaggaaactgattttctgctgtgctggagttttgtgccataggccagcagaactacttcattggccatgtgaacaaggtagccagctcagtaagttggcctggtcatgaggacatcaggggatatggcagaaggatgctctctttggcagaggtgtaaacttttacttgactgccttttgaaaacttagcttgaccctgcagaaggtagttgatagttttctactgctgtagctgcctcagctggcacactggtgtgtcggttgtgactggaggtggtgcaagaggtagaacaggacagttctgtgtgtggcagcaagttttaactcggctcagatgtgaaactgcagccacaggaatgtgttaaacatgagatggtgactttccagtgaagtcataggtatttatttctcagccagtgggcataggagcccatggtgtcggcccattctaatggagtgcttttctctaacagcttaatgctgctggtcaagctgagtgttactgagtgcatagagatggtcacatgggaaagaaagagagaattttgtttctgataaatgttcttttaatattagttataagaagttttacatattagatttgtgaaattcagctacgctgttgtaacacttagacacttgcctgtggcttgacttggaagtgcttgtggagagcaatgtgactaacacctcgtgttgcctagtgatgccctttcacttgagctggggtttttttagtgcctgtctggacatgaaagacttagagaaaagctgcaaacaagtgttgactgctagcttgtatctttaattgctttaaaactcgtgggcattctcatgaattatataagcttaagtagttgagaaaatgacataaaattaagtaaatccctgctgaaatcattctcagacagaatttgacaaaaaaaaatcctttcacaagtcttttttgacattttttttctaaaggattttttatggtttcaagactggactgatgcttggggggaaaaaggagttactgaagtggaagcttaactagaaagtttttatttgttgctttgttttctccattatttcgtgaagaattgagagactgtagagccagtttaccaacaaaagtaacctcatgtcttttgagttaggatgaaattttctgggaaagaatggcattcctgcagttattgatagccatggaatcatatatacactgtattcttcatatattgtcaattaaacataaataaaatcctaggaaatggtaaaagcatcaactatcacaccctcttttttctatcttatgactgaattaactttctgtgttttcatgcttttctcctcaaaacacttcataatgtaactggaaaagacacactaatcctagcgtgatgatctgtcagttaccttgtgggttttttcctctttgtctgtcagtgtaaaggtgtatgatagacattctgtacagaacgggctcttagaacaggatttgctgttgagctctacagtaaaccttttattttaattttgcatggatgctcaaggaccactctcattttcatatgtaaaggaaataaacttacgtttttggcaacggcagtaatcagcatctttccttcaggtgtttagtacacttgtacatagtgatcgtgtttgggaagttgtcctgcttggttggctgagggttgtattgtgagatgtgtaacctactatctctgtaagcccagtgctgttgctcgttgtatttaatgccagcagcatcaagttttgtttacaaatccggaatcaggtaactgtatttaaactatgtcagcttgtcatctcccagtcttatttttcagcttaaa\t\t4188689\t49\t11\t0\t0\n' |