| Previous changeset 17:697f40151eaf (2015-09-04) Next changeset 19:7f3c448e119b (2015-11-19) |
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Commit message:
v0.1.06, now using BLAST+ 2.2.31 |
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modified:
test-data/blastn_chimera_vs_three_human_max1.tabular test-data/blastn_chimera_vs_three_human_max1.txt test-data/blastn_rhodopsin_vs_three_human.tabular test-data/blastn_rhodopsin_vs_three_human.xml test-data/blastp_four_human_vs_rhodopsin.tabular test-data/blastp_four_human_vs_rhodopsin.xml test-data/blastp_four_human_vs_rhodopsin_ext.tabular test-data/blastp_rhodopsin_vs_four_human.tabular test-data/blastx_rhodopsin_vs_four_human.tabular test-data/blastx_rhodopsin_vs_four_human.xml test-data/blastx_rhodopsin_vs_four_human_all.tabular test-data/blastx_rhodopsin_vs_four_human_ext.tabular test-data/cd00003_and_cd00008.pin test-data/four_human_proteins.dbinfo.txt test-data/four_human_proteins.fasta.pin test-data/four_human_proteins_taxid.fasta.pin test-data/tblastn_four_human_vs_rhodopsin.html test-data/tblastn_four_human_vs_rhodopsin.tabular test-data/tblastn_four_human_vs_rhodopsin.xml test-data/tblastn_four_human_vs_rhodopsin_ext.tabular test-data/tblastx_rhodopsin_vs_three_human.tabular test-data/three_human_mRNA.dbinfo.txt test-data/three_human_mRNA.fasta.nin tools/ncbi_blast_plus/README.rst tools/ncbi_blast_plus/ncbi_macros.xml tools/ncbi_blast_plus/tool_dependencies.xml |
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| diff -r 697f40151eaf -r 577d9c12411a test-data/blastn_chimera_vs_three_human_max1.tabular --- a/test-data/blastn_chimera_vs_three_human_max1.tabular Fri Sep 04 09:45:57 2015 -0400 +++ b/test-data/blastn_chimera_vs_three_human_max1.tabular Mon Sep 07 04:44:24 2015 -0400 |
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| @@ -1,1 +1,1 @@ -chimera ENA|AB011145|AB011145.1 100.00 4560 0 0 1 4560 121 4680 0.0 8421 +chimera ENA|AB011145|AB011145.1 100.00 4560 0 0 1 4560 121 4680 0.0 8421 |
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| diff -r 697f40151eaf -r 577d9c12411a test-data/blastn_chimera_vs_three_human_max1.txt --- a/test-data/blastn_chimera_vs_three_human_max1.txt Fri Sep 04 09:45:57 2015 -0400 +++ b/test-data/blastn_chimera_vs_three_human_max1.txt Mon Sep 07 04:44:24 2015 -0400 |
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| @@ -1,4 +1,4 @@ -BLASTN 2.2.30+ +BLASTN 2.2.31+ Reference: Zheng Zhang, Scott Schwartz, Lukas Wagner, and Webb @@ -18,14 +18,14 @@ Score E Sequences producing significant alignments: (Bits) Value - ENA|AB011145|AB011145.1 Homo sapiens mRNA for KIAA0573 protein,... 8421 0.0 + ENA|AB011145|AB011145.1 Homo sapiens mRNA for KIAA0573 protein,... 8421 0.0 > ENA|AB011145|AB011145.1 Homo sapiens mRNA for KIAA0573 protein, partial cds. Length=4796 - Score = 8421 bits (4560), Expect = 0.0 + Score = 8421 bits (4560), Expect = 0.0 Identities = 4560/4560 (100%), Gaps = 0/4560 (0%) Strand=Plus/Plus @@ -346,7 +346,7 @@ Database: Just 3 human mRNA sequences - Posted date: Dec 26, 2014 5:54 AM + Posted date: Jul 4, 2015 3:35 PM Number of letters in database: 10,732 Number of sequences in database: 3 |
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| diff -r 697f40151eaf -r 577d9c12411a test-data/blastn_rhodopsin_vs_three_human.tabular --- a/test-data/blastn_rhodopsin_vs_three_human.tabular Fri Sep 04 09:45:57 2015 -0400 +++ b/test-data/blastn_rhodopsin_vs_three_human.tabular Mon Sep 07 04:44:24 2015 -0400 |
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| @@ -1,7 +1,7 @@ -gi|57163782|ref|NM_001009242.1| ENA|BC112106|BC112106.1 92.07 1047 83 0 1 1047 88 1134 0.0 1474 -gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 91.59 333 28 0 1 333 118 450 4e-132 460 -gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 91.36 243 19 2 3127 3368 782 1023 3e-93 331 -gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 94.22 173 10 0 1410 1582 448 620 3e-73 265 -gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 92.94 170 12 0 2854 3023 615 784 3e-68 248 -gi|283855822|gb|GQ290312.1| ENA|BC112106|BC112106.1 91.55 959 81 0 1 959 118 1076 0.0 1323 -gi|18148870|dbj|AB062417.1| ENA|BC112106|BC112106.1 87.50 1048 129 2 1 1047 88 1134 0.0 1208 +gi|57163782|ref|NM_001009242.1| ENA|BC112106|BC112106.1 92.07 1047 83 0 1 1047 88 1134 0.0 1474 +gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 91.59 333 28 0 1 333 118 450 4e-132 460 +gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 91.36 243 19 2 3127 3368 782 1023 3e-93 331 +gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 94.22 173 10 0 1410 1582 448 620 3e-73 265 +gi|283855845|gb|GQ290303.1| ENA|BC112106|BC112106.1 92.94 170 12 0 2854 3023 615 784 3e-68 248 +gi|283855822|gb|GQ290312.1| ENA|BC112106|BC112106.1 91.55 959 81 0 1 959 118 1076 0.0 1323 +gi|18148870|dbj|AB062417.1| ENA|BC112106|BC112106.1 87.50 1048 129 2 1 1047 88 1134 0.0 1208 |
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| diff -r 697f40151eaf -r 577d9c12411a test-data/blastn_rhodopsin_vs_three_human.xml --- a/test-data/blastn_rhodopsin_vs_three_human.xml Fri Sep 04 09:45:57 2015 -0400 +++ b/test-data/blastn_rhodopsin_vs_three_human.xml Mon Sep 07 04:44:24 2015 -0400 |
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| @@ -2,7 +2,7 @@ <!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "http://www.ncbi.nlm.nih.gov/dtd/NCBI_BlastOutput.dtd"> <BlastOutput> <BlastOutput_program>blastn</BlastOutput_program> - <BlastOutput_version>BLASTN 2.2.30+</BlastOutput_version> + <BlastOutput_version>BLASTN 2.2.31+</BlastOutput_version> <BlastOutput_reference>Zheng Zhang, Scott Schwartz, Lukas Wagner, and Webb Miller (2000), "A greedy algorithm for aligning DNA sequences", J Comput Biol 2000; 7(1-2):203-14.</BlastOutput_reference> <BlastOutput_db></BlastOutput_db> <BlastOutput_query-ID>Query_1</BlastOutput_query-ID> |
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| diff -r 697f40151eaf -r 577d9c12411a test-data/blastp_four_human_vs_rhodopsin.tabular --- a/test-data/blastp_four_human_vs_rhodopsin.tabular Fri Sep 04 09:45:57 2015 -0400 +++ b/test-data/blastp_four_human_vs_rhodopsin.tabular Mon Sep 07 04:44:24 2015 -0400 |
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| @@ -1,6 +1,6 @@ -sp|P08100|OPSD_HUMAN gi|57163783|ref|NP_001009242.1| 96.55 348 12 0 1 348 1 348 0.0 701 -sp|P08100|OPSD_HUMAN gi|3024260|sp|P56514.1|OPSD_BUFBU 84.80 342 51 1 1 341 1 342 0.0 619 -sp|P08100|OPSD_HUMAN gi|283855846|gb|ADB45242.1| 94.82 328 17 0 11 338 1 328 0.0 653 -sp|P08100|OPSD_HUMAN gi|283855823|gb|ADB45229.1| 94.82 328 17 0 11 338 1 328 0.0 631 -sp|P08100|OPSD_HUMAN gi|223523|prf||0811197A 93.10 348 23 1 1 348 1 347 0.0 673 -sp|P08100|OPSD_HUMAN gi|12583665|dbj|BAB21486.1| 82.16 342 60 1 1 341 1 342 0.0 599 +sp|P08100|OPSD_HUMAN gi|57163783|ref|NP_001009242.1| 96.55 348 12 0 1 348 1 348 0.0 701 +sp|P08100|OPSD_HUMAN gi|3024260|sp|P56514.1|OPSD_BUFBU 84.80 342 51 1 1 341 1 342 0.0 619 +sp|P08100|OPSD_HUMAN gi|283855846|gb|ADB45242.1| 94.82 328 17 0 11 338 1 328 0.0 653 +sp|P08100|OPSD_HUMAN gi|283855823|gb|ADB45229.1| 94.82 328 17 0 11 338 1 328 0.0 631 +sp|P08100|OPSD_HUMAN gi|223523|prf||0811197A 93.10 348 23 1 1 348 1 347 0.0 673 +sp|P08100|OPSD_HUMAN gi|12583665|dbj|BAB21486.1| 82.16 342 60 1 1 341 1 342 0.0 599 |
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| diff -r 697f40151eaf -r 577d9c12411a test-data/blastp_four_human_vs_rhodopsin.xml --- a/test-data/blastp_four_human_vs_rhodopsin.xml Fri Sep 04 09:45:57 2015 -0400 +++ b/test-data/blastp_four_human_vs_rhodopsin.xml Mon Sep 07 04:44:24 2015 -0400 |
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| @@ -2,7 +2,7 @@ <!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "http://www.ncbi.nlm.nih.gov/dtd/NCBI_BlastOutput.dtd"> <BlastOutput> <BlastOutput_program>blastp</BlastOutput_program> - <BlastOutput_version>BLASTP 2.2.30+</BlastOutput_version> + <BlastOutput_version>BLASTP 2.2.31+</BlastOutput_version> <BlastOutput_reference>Stephen F. Altschul, Thomas L. Madden, Alejandro A. Sch&auml;ffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402.</BlastOutput_reference> <BlastOutput_db></BlastOutput_db> <BlastOutput_query-ID>sp|Q9BS26|ERP44_HUMAN</BlastOutput_query-ID> |
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| diff -r 697f40151eaf -r 577d9c12411a test-data/blastp_four_human_vs_rhodopsin_ext.tabular --- a/test-data/blastp_four_human_vs_rhodopsin_ext.tabular Fri Sep 04 09:45:57 2015 -0400 +++ b/test-data/blastp_four_human_vs_rhodopsin_ext.tabular Mon Sep 07 04:44:24 2015 -0400 |
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| b'@@ -1,6 +1,6 @@\n-sp|P08100|OPSD_HUMAN\tgi|57163783|ref|NP_001009242.1|\t96.55\t348\t12\t0\t1\t348\t1\t348\t0.0\t 701\tgi|57163783|ref|NP_001009242.1|\t1808\t336\t343\t0\t98.56\t1\t1\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\tMNGTEGPNFYVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTGSKTETSQVAPA\t348\t348\tN/A\n-sp|P08100|OPSD_HUMAN\tgi|3024260|sp|P56514.1|OPSD_BUFBU\t84.80\t342\t51\t1\t1\t341\t1\t342\t0.0\t 619\tgi|3024260|sp|P56514.1|OPSD_BUFBU\t1595\t290\t322\t1\t94.15\t1\t1\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEA-SATVSKTE\tMNGTEGPNFYIPMSNKTGVVRSPFEYPQYYLAEPWQYSILCAYMFLLILLGFPINFMTLYVTIQHKKLRTPLNYILLNLAFANHFMVLCGFTVTMYSSMNGYFILGATGCYVEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFSENHAVMGVAFTWIMALSCAVPPLLGWSRYIPEGMQCSCGVDYYTLKPEVNNESFVIYMFVVHFTIPLIIIFFCYGRLVCTVKEAAAQQQESATTQKAEKEVTRMVIIMVVFFLICWVPYASVAFFIFSNQGSEFGPIFMTVPAFFAKSSSIYNPVIYIMLNKQFRNCMITTLCCGKNPFGEDDASSAATSKTE\t348\t354\tN/A\n-sp|P08100|OPSD_HUMAN\tgi|283855846|gb|ADB45242.1|\t94.82\t328\t17\t0\t11\t338\t1\t328\t0.0\t 653\tgi|283855846|gb|ADB45242.1|\t1684\t311\t321\t0\t97.87\t1\t1\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVS\tVPFSNKTGVVRSPFEHPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLALTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTAS\t348\t328\tN/A\n-sp|P08100|OPSD_HUMAN\tgi|283855823|gb|ADB45229.1|\t94.82\t328\t17\t0\t11\t338\t1\t328\t0.0\t 631\tgi|283855823|gb|ADB45229.1|\t1627\t311\t323\t0\t98.48\t1\t1\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVS\tVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVANLFMVFGGFTTTLYTSMHGYFVFGATGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLAFTWVMALACAAPPLAGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVVAFLICWLPYASVAFYIFTHQGSNFGPVFMTIPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTAS\t348\t328\tN/A\n-sp|P08100|OPSD_HUMAN\tgi|223523|prf||0811197A\t93.10\t348\t23\t1\t1\t348\t1\t347\t0.0\t 673\tgi|223523|prf||0811197A\t1736\t324\t336\t1\t96.55\t1\t1\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\tMNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQFSMLAAYMFLLIMLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPL'..b'15\t1\t1\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEA-SATVSKTE\tMNGTEGPNFYIPMSNKTGVVRSPFEYPQYYLAEPWQYSILCAYMFLLILLGFPINFMTLYVTIQHKKLRTPLNYILLNLAFANHFMVLCGFTVTMYSSMNGYFILGATGCYVEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFSENHAVMGVAFTWIMALSCAVPPLLGWSRYIPEGMQCSCGVDYYTLKPEVNNESFVIYMFVVHFTIPLIIIFFCYGRLVCTVKEAAAQQQESATTQKAEKEVTRMVIIMVVFFLICWVPYASVAFFIFSNQGSEFGPIFMTVPAFFAKSSSIYNPVIYIMLNKQFRNCMITTLCCGKNPFGEDDASSAATSKTE\t348\t354\tN/A\n+sp|P08100|OPSD_HUMAN\tgi|283855846|gb|ADB45242.1|\t94.82\t328\t17\t0\t11\t338\t1\t328\t0.0\t653\tgi|283855846|gb|ADB45242.1|\t1684\t311\t321\t0\t97.87\t1\t1\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVS\tVPFSNKTGVVRSPFEHPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLALTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTAS\t348\t328\tN/A\n+sp|P08100|OPSD_HUMAN\tgi|283855823|gb|ADB45229.1|\t94.82\t328\t17\t0\t11\t338\t1\t328\t0.0\t631\tgi|283855823|gb|ADB45229.1|\t1627\t311\t323\t0\t98.48\t1\t1\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVS\tVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVANLFMVFGGFTTTLYTSMHGYFVFGATGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLAFTWVMALACAAPPLAGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVVAFLICWLPYASVAFYIFTHQGSNFGPVFMTIPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTAS\t348\t328\tN/A\n+sp|P08100|OPSD_HUMAN\tgi|223523|prf||0811197A\t93.10\t348\t23\t1\t1\t348\t1\t347\t0.0\t673\tgi|223523|prf||0811197A\t1736\t324\t336\t1\t96.55\t1\t1\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\tMNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQFSMLAAYMFLLIMLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGID-YTPHEETNNESFVIYMFVVHFIIPLIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSDFGPIFMTIPAFFAKTSAVYNPVIYIMMNKQFRNCMVTTLCCGKNPLGDDEASTTVSKTETSQVAPA\t348\t347\tN/A\n+sp|P08100|OPSD_HUMAN\tgi|12583665|dbj|BAB21486.1|\t82.16\t342\t60\t1\t1\t341\t1\t342\t0.0\t599\tgi|12583665|dbj|BAB21486.1|\t1544\t281\t314\t1\t91.81\t1\t1\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPL-GDDEASATVSKTE\tMNGTEGPNFYIPMSNATGVVRSPFEYPQYYLAEPWAFSALSAYMFFLIIAGFPINFLTLYVTIEHKKLRTPLNYILLNLAVADLFMVFGGFTTTMYTSMHGYFVFGPTGCNIEGFFATLGGEIALWCLVVLAIERWMVVCKPVTNFRFGESHAIMGVMVTWTMALACALPPLFGWSRYIPEGLQCSCGIDYYTRAPGINNESFVIYMFTCHFSIPLAVISFCYGRLVCTVKEAAAQQQESETTQRAEREVTRMVVIMVISFLVCWVPYASVAWYIFTHQGSTFGPIFMTIPSFFAKSSALYNPMIYICMNKQFRHCMITTLCCGKNPFEEEDGASATSSKTE\t348\t354\tN/A\n' |
| b |
| diff -r 697f40151eaf -r 577d9c12411a test-data/blastp_rhodopsin_vs_four_human.tabular --- a/test-data/blastp_rhodopsin_vs_four_human.tabular Fri Sep 04 09:45:57 2015 -0400 +++ b/test-data/blastp_rhodopsin_vs_four_human.tabular Mon Sep 07 04:44:24 2015 -0400 |
| b |
| @@ -1,6 +1,6 @@ -gi|57163783|ref|NP_001009242.1| sp|P08100|OPSD_HUMAN 96.55 348 12 0 1 348 1 348 0.0 701 -gi|3024260|sp|P56514.1|OPSD_BUFBU sp|P08100|OPSD_HUMAN 83.33 354 53 2 1 354 1 348 0.0 605 -gi|283855846|gb|ADB45242.1| sp|P08100|OPSD_HUMAN 94.82 328 17 0 1 328 11 338 0.0 630 -gi|283855823|gb|ADB45229.1| sp|P08100|OPSD_HUMAN 94.82 328 17 0 1 328 11 338 0.0 630 -gi|223523|prf||0811197A sp|P08100|OPSD_HUMAN 93.10 348 23 1 1 347 1 348 0.0 651 -gi|12583665|dbj|BAB21486.1| sp|P08100|OPSD_HUMAN 81.09 349 65 1 1 349 1 348 0.0 587 +gi|57163783|ref|NP_001009242.1| sp|P08100|OPSD_HUMAN 96.55 348 12 0 1 348 1 348 0.0 701 +gi|3024260|sp|P56514.1|OPSD_BUFBU sp|P08100|OPSD_HUMAN 83.33 354 53 2 1 354 1 348 0.0 605 +gi|283855846|gb|ADB45242.1| sp|P08100|OPSD_HUMAN 94.82 328 17 0 1 328 11 338 0.0 630 +gi|283855823|gb|ADB45229.1| sp|P08100|OPSD_HUMAN 94.82 328 17 0 1 328 11 338 0.0 630 +gi|223523|prf||0811197A sp|P08100|OPSD_HUMAN 93.10 348 23 1 1 347 1 348 0.0 651 +gi|12583665|dbj|BAB21486.1| sp|P08100|OPSD_HUMAN 81.09 349 65 1 1 349 1 348 0.0 587 |
| b |
| diff -r 697f40151eaf -r 577d9c12411a test-data/blastx_rhodopsin_vs_four_human.tabular --- a/test-data/blastx_rhodopsin_vs_four_human.tabular Fri Sep 04 09:45:57 2015 -0400 +++ b/test-data/blastx_rhodopsin_vs_four_human.tabular Mon Sep 07 04:44:24 2015 -0400 |
| b |
| @@ -1,10 +1,10 @@ -gi|57163782|ref|NM_001009242.1| sp|P08100|OPSD_HUMAN 96.55 348 12 0 1 1044 1 348 0.0 639 -gi|2734705|gb|U59921.1|BBU59921 sp|P08100|OPSD_HUMAN 85.24 332 49 0 42 1037 1 332 0.0 551 -gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 96.40 111 4 0 1 333 11 121 3e-67 220 -gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 92.31 65 5 0 3174 3368 248 312 2e-35 127 -gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 91.53 59 5 0 2855 3031 177 235 2e-33 121 +gi|57163782|ref|NM_001009242.1| sp|P08100|OPSD_HUMAN 96.55 348 12 0 1 1044 1 348 0.0 639 +gi|2734705|gb|U59921.1|BBU59921 sp|P08100|OPSD_HUMAN 85.24 332 49 0 42 1037 1 332 0.0 551 +gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 96.40 111 4 0 1 333 11 121 3e-67 220 +gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 92.31 65 5 0 3174 3368 248 312 2e-35 127 +gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 91.53 59 5 0 2855 3031 177 235 2e-33 121 gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 93.22 59 4 0 1404 1580 119 177 1e-25 97.1 gi|283855845|gb|GQ290303.1| sp|P08100|OPSD_HUMAN 88.46 26 3 0 4222 4299 312 337 1e-12 57.0 -gi|283855822|gb|GQ290312.1| sp|P08100|OPSD_HUMAN 95.09 326 16 0 1 978 11 336 0.0 589 -gi|18148870|dbj|AB062417.1| sp|P08100|OPSD_HUMAN 93.39 348 23 0 1 1044 1 348 0.0 619 -gi|12583664|dbj|AB043817.1| sp|P08100|OPSD_HUMAN 81.68 333 61 0 23 1021 1 333 0.0 532 +gi|283855822|gb|GQ290312.1| sp|P08100|OPSD_HUMAN 95.09 326 16 0 1 978 11 336 0.0 589 +gi|18148870|dbj|AB062417.1| sp|P08100|OPSD_HUMAN 93.39 348 23 0 1 1044 1 348 0.0 619 +gi|12583664|dbj|AB043817.1| sp|P08100|OPSD_HUMAN 81.68 333 61 0 23 1021 1 333 0.0 532 |
| b |
| diff -r 697f40151eaf -r 577d9c12411a test-data/blastx_rhodopsin_vs_four_human.xml --- a/test-data/blastx_rhodopsin_vs_four_human.xml Fri Sep 04 09:45:57 2015 -0400 +++ b/test-data/blastx_rhodopsin_vs_four_human.xml Mon Sep 07 04:44:24 2015 -0400 |
| b |
| @@ -2,7 +2,7 @@ <!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "http://www.ncbi.nlm.nih.gov/dtd/NCBI_BlastOutput.dtd"> <BlastOutput> <BlastOutput_program>blastx</BlastOutput_program> - <BlastOutput_version>BLASTX 2.2.30+</BlastOutput_version> + <BlastOutput_version>BLASTX 2.2.31+</BlastOutput_version> <BlastOutput_reference>Stephen F. Altschul, Thomas L. Madden, Alejandro A. Sch&auml;ffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402.</BlastOutput_reference> <BlastOutput_db></BlastOutput_db> <BlastOutput_query-ID>Query_1</BlastOutput_query-ID> |
| b |
| diff -r 697f40151eaf -r 577d9c12411a test-data/blastx_rhodopsin_vs_four_human_all.tabular --- a/test-data/blastx_rhodopsin_vs_four_human_all.tabular Fri Sep 04 09:45:57 2015 -0400 +++ b/test-data/blastx_rhodopsin_vs_four_human_all.tabular Mon Sep 07 04:44:24 2015 -0400 |
| b |
| b'@@ -1,10 +1,10 @@\n-gi|57163782|ref|NM_001009242.1|\tsp|P08100|OPSD_HUMAN\t96.55\t348\t12\t0\t1\t1044\t1\t348\t0.0\t 639\tsp|P08100|OPSD_HUMAN\t1647\t336\t343\t0\t98.56\t1\t0\tMNGTEGPNFYVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTGSKTETSQVAPA\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\t1047\t348\tN/A\t0\tgi|57163782|ref|NM_001009242.1|\tgi|57163782|ref|NM_001009242.1|\t0\t0\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tN/A\tN/A\t1/0\t15KA71FL4TS79VA9ML34VI71LI7SASA21LI13TA1GV11\t99\t33\tN/A\tN/A\tN/A\tN/A\tN/A\n-gi|2734705|gb|U59921.1|BBU59921\tsp|P08100|OPSD_HUMAN\t85.24\t332\t49\t0\t42\t1037\t1\t332\t0.0\t 551\tsp|P08100|OPSD_HUMAN\t1419\t283\t315\t0\t94.88\t3\t0\tMNGTEGPNFYIPMSNKTGVVRSPFEYPQYYLAEPWQYSILCAYMFLLILLGFPINFMTLYVTIQHKKLRTPLNYILLNLAFANHFMVLCGFTVTMYSSMNGYFILGATGCYVEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFSENHAVMGVAFTWIMALSCAVPPLLGWSRYIPEGMQCSCGVDYYTLKPEVNNESFVIYMFVVHFTIPLIIIFFCYGRLVCTVKEAAAQQQESATTQKAEKEVTRMVIIMVVFFLICWVPYASVAFFIFSNQGSEFGPIFMTVPAFFAKSSSIYNPVIYIMLNKQFRNCMITTLCCGKNPFGEDD\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDE\t1574\t348\tN/A\t0\tgi|2734705|gb|U59921.1|BBU59921\tgi|2734705|gb|U59921.1|BBU59921\t0\t0\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tN/A\tN/A\t3/0\t10IV1MF2KA20YF1IM1CA7LV7ML5IV17FV1NDHL4CG3VS1ML1ST1MLNH3IVLF1AP3YNVL36SG4VI7IV3SA2VA3LA9ML5VI26LM8RQ2CF30VIFA13FY2STNH3EN7VI7SASA9LM8IL2LI6FL1ED1DE\t63\t21\tN/A\tN/A\tN/A\tN/A\tN/A\n-gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t96.40\t111\t4\t0\t1\t333\t11\t121\t3e-67\t 220\tsp|P08100|OPSD_HUMAN\t561\t107\t109\t0\t98.20\t1\t0\tVPFSNKTGVVRSPFEHPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGG\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGG\t4301\t348\tN/A\t0\tgi|283855845|gb|GQ290303.1|\tgi|283855845|gb|GQ290303.1|\t0\t0\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tN/A\tN/A\t1/0\t5KA9HY61FL4TS28\t22\t3\tN/A\tN/A\tN/A\tN/A\tN/A\n-gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t92.31\t65\t5\t0\t3174\t3368\t248\t312\t2e-35\t 127\tsp|P08100|OPSD_HUMAN\t319\t60\t64\t0\t98.46\t3\t0\tKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQ\tKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQ\t4301\t348\tN/A\t0\tgi|283855845|gb|GQ290303.1|\tgi|283855845|gb|GQ290303.1|\t0\t0\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tN/A\tN/A\t3/0\t18LV3GS19LI7SASA13\t22\t2\tN/A\tN/A\tN/A\tN/A\tN/A\n-gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t91.53\t59\t5\t0\t2855\t3031\t177\t235\t2e-33\t 121\tsp|P08100|OPSD_HUMAN\t304\t54\t57\t0\t96.61\t2\t0\tRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEVRS\tRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAA\t4301\t348\tN/A\t0\tgi|283855845|gb|GQ290303.1|\tgi|283855845|gb|GQ290303.1|\t0\t0\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tN/A\tN/A\t2/0\t6ML34VI14VARASA\t22\t1\tN/A\tN/A\tN/A\tN/A\tN/A\n+gi|57163782|ref|NM_001009242.1|\tsp|P08100|OPSD_HUMAN\t96.55\t348\t12\t0\t1\t1044\t1\t348\t0.0\t639\tsp|P08100|OPSD_HUMAN\t1647\t336\t343\t0\t98.56\t1\t0\tMNGTEGPNFYVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQC'..b'GPIFMTIPSFFAKSSALYNPMIYICMNKQFRHCMITTLCCGKNPFEEEDG\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEA\t1344\t348\tN/A\t0\tgi|12583664|dbj|AB043817.1|\tgi|12583664|dbj|AB043817.1|\t0\t0\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tN/A\tN/A\t2/0\t10IV1MF22AQ2AM1SA4FL2IVAL12IVEQ23FL4TS1ML3ML12IL14CS8WYMV5VMTS6SN6MAVF2TV6LA3FA20RLAK1GEIV10TVCV2ST2LMAIVI1SF4RQ2CF12EA3RK2RK6VI4SA2VI9WF8TN9SA5SA1LI3MV3CM6HN2IL2LI6FLEGEDEDDEGA\t74\t25\tN/A\tN/A\tN/A\tN/A\tN/A\n+gi|283855822|gb|GQ290312.1|\tsp|P08100|OPSD_HUMAN\t95.09\t326\t16\t0\t1\t978\t11\t336\t0.0\t589\tsp|P08100|OPSD_HUMAN\t1518\t310\t322\t0\t98.77\t1\t0\tVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVANLFMVFGGFTTTLYTSMHGYFVFGATGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLAFTWVMALACAAPPLAGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVVAFLICWLPYASVAFYIFTHQGSNFGPVFMTIPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTT\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASAT\t983\t348\tN/A\t0\tgi|283855822|gb|GQ290312.1|\tgi|283855822|gb|GQ290312.1|\t0\t0\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tN/A\tN/A\t1/0\t5KA66ND4FL4TS5ML7AP49LV25ML34VI40VI6LV19VI11SASA21LI13TA1\t99\t33\tN/A\tN/A\tN/A\tN/A\tN/A\n+gi|18148870|dbj|AB062417.1|\tsp|P08100|OPSD_HUMAN\t93.39\t348\t23\t0\t1\t1044\t1\t348\t0.0\t619\tsp|P08100|OPSD_HUMAN\t1596\t325\t337\t0\t96.84\t1\t0\tMNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQFSMLAAYMFLLIMLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTPHEETNNESFVIYMFVVHFIIPLIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSDFGPIFMTIPAFFAKTSAVYNPVIYIMMNKQFRNCMVTTLCCGKNPLGDDEASTTVSKTETSQVAPA\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\t1047\t348\tN/A\t0\tgi|18148870|dbj|AB062417.1|\tgi|18148870|dbj|AB062417.1|\t0\t0\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tN/A\tN/A\t1/0\t15KA9AY22MV38FL4TS79VA9ML10PLHKEP1TV14IT2LM1VI47LV3GS11DN14TSSA1VI17VL2LI13TA13\t99\t33\tN/A\tN/A\tN/A\tN/A\tN/A\n+gi|12583664|dbj|AB043817.1|\tsp|P08100|OPSD_HUMAN\t81.68\t333\t61\t0\t23\t1021\t1\t333\t0.0\t532\tsp|P08100|OPSD_HUMAN\t1371\t272\t307\t0\t92.19\t2\t0\tMNGTEGPNFYIPMSNATGVVRSPFEYPQYYLAEPWAFSALSAYMFFLIIAGFPINFLTLYVTIEHKKLRTPLNYILLNLAVADLFMVFGGFTTTMYTSMHGYFVFGPTGCNIEGFFATLGGEIALWCLVVLAIERWMVVCKPVTNFRFGESHAIMGVMVTWTMALACALPPLFGWSRYIPEGLQCSCGIDYYTRAPGINNESFVIYMFTCHFSIPLAVISFCYGRLVCTVKEAAAQQQESETTQRAEREVTRMVVIMVISFLVCWVPYASVAWYIFTHQGSTFGPIFMTIPSFFAKSSALYNPMIYICMNKQFRHCMITTLCCGKNPFEEEDG\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEA\t1344\t348\tN/A\t0\tgi|12583664|dbj|AB043817.1|\tgi|12583664|dbj|AB043817.1|\t0\t0\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tsp|P08100|OPSD_HUMAN\tN/A\tN/A\t2/0\t10IV1MF22AQ2AM1SA4FL2IVAL12IVEQ23FL4TS1ML3ML12IL14CS8WYMV5VMTS6SN6MAVF2TV6LA3FA20RLAK1GEIV10TVCV2ST2LMAIVI1SF4RQ2CF12EA3RK2RK6VI4SA2VI9WF8TN9SA5SA1LI3MV3CM6HN2IL2LI6FLEGEDEDDEGA\t74\t25\tN/A\tN/A\tN/A\tN/A\tN/A\n' |
| b |
| diff -r 697f40151eaf -r 577d9c12411a test-data/blastx_rhodopsin_vs_four_human_ext.tabular --- a/test-data/blastx_rhodopsin_vs_four_human_ext.tabular Fri Sep 04 09:45:57 2015 -0400 +++ b/test-data/blastx_rhodopsin_vs_four_human_ext.tabular Mon Sep 07 04:44:24 2015 -0400 |
| b |
| b'@@ -1,10 +1,10 @@\n-gi|57163782|ref|NM_001009242.1|\tsp|P08100|OPSD_HUMAN\t96.55\t348\t12\t0\t1\t1044\t1\t348\t0.0\t 639\tsp|P08100|OPSD_HUMAN\t1647\t336\t343\t0\t98.56\t1\t0\tMNGTEGPNFYVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTGSKTETSQVAPA\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\t1047\t348\tN/A\n-gi|2734705|gb|U59921.1|BBU59921\tsp|P08100|OPSD_HUMAN\t85.24\t332\t49\t0\t42\t1037\t1\t332\t0.0\t 551\tsp|P08100|OPSD_HUMAN\t1419\t283\t315\t0\t94.88\t3\t0\tMNGTEGPNFYIPMSNKTGVVRSPFEYPQYYLAEPWQYSILCAYMFLLILLGFPINFMTLYVTIQHKKLRTPLNYILLNLAFANHFMVLCGFTVTMYSSMNGYFILGATGCYVEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFSENHAVMGVAFTWIMALSCAVPPLLGWSRYIPEGMQCSCGVDYYTLKPEVNNESFVIYMFVVHFTIPLIIIFFCYGRLVCTVKEAAAQQQESATTQKAEKEVTRMVIIMVVFFLICWVPYASVAFFIFSNQGSEFGPIFMTVPAFFAKSSSIYNPVIYIMLNKQFRNCMITTLCCGKNPFGEDD\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDE\t1574\t348\tN/A\n-gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t96.40\t111\t4\t0\t1\t333\t11\t121\t3e-67\t 220\tsp|P08100|OPSD_HUMAN\t561\t107\t109\t0\t98.20\t1\t0\tVPFSNKTGVVRSPFEHPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGG\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGG\t4301\t348\tN/A\n-gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t92.31\t65\t5\t0\t3174\t3368\t248\t312\t2e-35\t 127\tsp|P08100|OPSD_HUMAN\t319\t60\t64\t0\t98.46\t3\t0\tKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQ\tKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQ\t4301\t348\tN/A\n-gi|283855845|gb|GQ290303.1|\tsp|P08100|OPSD_HUMAN\t91.53\t59\t5\t0\t2855\t3031\t177\t235\t2e-33\t 121\tsp|P08100|OPSD_HUMAN\t304\t54\t57\t0\t96.61\t2\t0\tRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEVRS\tRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAA\t4301\t348\tN/A\n+gi|57163782|ref|NM_001009242.1|\tsp|P08100|OPSD_HUMAN\t96.55\t348\t12\t0\t1\t1044\t1\t348\t0.0\t639\tsp|P08100|OPSD_HUMAN\t1647\t336\t343\t0\t98.56\t1\t0\tMNGTEGPNFYVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTGSKTETSQVAPA\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\t1047\t348\tN/A\n+gi|2734705|gb|U59921.1|BBU59921\tsp|P08100|OPSD_HUMAN\t85.24\t332\t49\t0\t42\t1037\t1\t332\t0.0\t551\tsp|P08100|OPSD_HUMAN\t1419\t283\t315\t0\t94.88\t3\t0\tMNGTEGPNFYIPMSNKTGVVRSPFEYPQYYLAEPWQYSILCAYMFLLILLGFPINFMTLYVTIQHKKLRTPLNYILLNLAFANHFMVLCGFTVTMYSSMNGYFILGATGCYVEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFSENHAVMGVAFTWIMALSCAVPPLLGWSRYIPEGMQCSCGVDYYTLKPEVNNESFVIYMFVVHFTIPLIIIFFCYGRLVCTVKEAAAQQQESATTQKAEKEVTRMVIIMVVFFLICWVPYASVAFFIFSNQGSEFGPIFMTVPAFFAKSSSIYNPVIYIMLNKQFRNCMITTLCCGKNPFGEDD\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYIL'..b'\t337\t0\t96.84\t1\t0\tMNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQFSMLAAYMFLLIMLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTPHEETNNESFVIYMFVVHFIIPLIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSDFGPIFMTIPAFFAKTSAVYNPVIYIMMNKQFRNCMVTTLCCGKNPLGDDEASTTVSKTETSQVAPA\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\t1047\t348\tN/A\n-gi|12583664|dbj|AB043817.1|\tsp|P08100|OPSD_HUMAN\t81.68\t333\t61\t0\t23\t1021\t1\t333\t0.0\t 532\tsp|P08100|OPSD_HUMAN\t1371\t272\t307\t0\t92.19\t2\t0\tMNGTEGPNFYIPMSNATGVVRSPFEYPQYYLAEPWAFSALSAYMFFLIIAGFPINFLTLYVTIEHKKLRTPLNYILLNLAVADLFMVFGGFTTTMYTSMHGYFVFGPTGCNIEGFFATLGGEIALWCLVVLAIERWMVVCKPVTNFRFGESHAIMGVMVTWTMALACALPPLFGWSRYIPEGLQCSCGIDYYTRAPGINNESFVIYMFTCHFSIPLAVISFCYGRLVCTVKEAAAQQQESETTQRAEREVTRMVVIMVISFLVCWVPYASVAWYIFTHQGSTFGPIFMTIPSFFAKSSALYNPMIYICMNKQFRHCMITTLCCGKNPFEEEDG\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEA\t1344\t348\tN/A\n+gi|283855822|gb|GQ290312.1|\tsp|P08100|OPSD_HUMAN\t95.09\t326\t16\t0\t1\t978\t11\t336\t0.0\t589\tsp|P08100|OPSD_HUMAN\t1518\t310\t322\t0\t98.77\t1\t0\tVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVANLFMVFGGFTTTLYTSMHGYFVFGATGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLAFTWVMALACAAPPLAGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVVAFLICWLPYASVAFYIFTHQGSNFGPVFMTIPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTT\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASAT\t983\t348\tN/A\n+gi|18148870|dbj|AB062417.1|\tsp|P08100|OPSD_HUMAN\t93.39\t348\t23\t0\t1\t1044\t1\t348\t0.0\t619\tsp|P08100|OPSD_HUMAN\t1596\t325\t337\t0\t96.84\t1\t0\tMNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQFSMLAAYMFLLIMLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTPHEETNNESFVIYMFVVHFIIPLIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSDFGPIFMTIPAFFAKTSAVYNPVIYIMMNKQFRNCMVTTLCCGKNPLGDDEASTTVSKTETSQVAPA\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\t1047\t348\tN/A\n+gi|12583664|dbj|AB043817.1|\tsp|P08100|OPSD_HUMAN\t81.68\t333\t61\t0\t23\t1021\t1\t333\t0.0\t532\tsp|P08100|OPSD_HUMAN\t1371\t272\t307\t0\t92.19\t2\t0\tMNGTEGPNFYIPMSNATGVVRSPFEYPQYYLAEPWAFSALSAYMFFLIIAGFPINFLTLYVTIEHKKLRTPLNYILLNLAVADLFMVFGGFTTTMYTSMHGYFVFGPTGCNIEGFFATLGGEIALWCLVVLAIERWMVVCKPVTNFRFGESHAIMGVMVTWTMALACALPPLFGWSRYIPEGLQCSCGIDYYTRAPGINNESFVIYMFTCHFSIPLAVISFCYGRLVCTVKEAAAQQQESETTQRAEREVTRMVVIMVISFLVCWVPYASVAWYIFTHQGSTFGPIFMTIPSFFAKSSALYNPMIYICMNKQFRHCMITTLCCGKNPFEEEDG\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEA\t1344\t348\tN/A\n' |
| b |
| diff -r 697f40151eaf -r 577d9c12411a test-data/cd00003_and_cd00008.pin |
| b |
| Binary file test-data/cd00003_and_cd00008.pin has changed |
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| diff -r 697f40151eaf -r 577d9c12411a test-data/four_human_proteins.dbinfo.txt --- a/test-data/four_human_proteins.dbinfo.txt Fri Sep 04 09:45:57 2015 -0400 +++ b/test-data/four_human_proteins.dbinfo.txt Mon Sep 07 04:44:24 2015 -0400 |
| b |
| @@ -1,7 +1,7 @@ Database: Just 4 human proteins 4 sequences; 3,297 total residues -Date: Feb 10, 2014 6:40 PM Longest sequence: 1,382 residues +Date: Jul 4, 2015 3:35 PM Longest sequence: 1,382 residues Volumes: - /mnt/galaxy/galaxy_blast/test-data/four_human_proteins_taxid.fasta + /mnt/galaxy/repositories/galaxy_blast/test-data/four_human_proteins_taxid.fasta |
| b |
| diff -r 697f40151eaf -r 577d9c12411a test-data/four_human_proteins.fasta.pin |
| b |
| Binary file test-data/four_human_proteins.fasta.pin has changed |
| b |
| diff -r 697f40151eaf -r 577d9c12411a test-data/four_human_proteins_taxid.fasta.pin |
| b |
| Binary file test-data/four_human_proteins_taxid.fasta.pin has changed |
| b |
| diff -r 697f40151eaf -r 577d9c12411a test-data/tblastn_four_human_vs_rhodopsin.html --- a/test-data/tblastn_four_human_vs_rhodopsin.html Fri Sep 04 09:45:57 2015 -0400 +++ b/test-data/tblastn_four_human_vs_rhodopsin.html Mon Sep 07 04:44:24 2015 -0400 |
| b |
| @@ -3,7 +3,7 @@ <BODY BGCOLOR="#FFFFFF" LINK="#0000FF" VLINK="#660099" ALINK="#660099"> <PRE> -<b>TBLASTN 2.2.30+</b> +<b>TBLASTN 2.2.31+</b> <b>Query=</b> sp|Q9BS26|ERP44_HUMAN Endoplasmic reticulum resident protein 44 @@ -462,7 +462,7 @@ Length=1047 - Score = 732 bits (1689), Expect = 0.0, Method: Compositional matrix adjust. + Score = 732 bits (1689), Expect = 0.0, Method: Compositional matrix adjust. Identities = 336/348 (97%), Positives = 343/348 (99%), Gaps = 0/348 (0%) Frame = +1 @@ -512,7 +512,7 @@ Length=1574 - Score = 646 bits (1489), Expect = 0.0, Method: Compositional matrix adjust. + Score = 646 bits (1489), Expect = 0.0, Method: Compositional matrix adjust. Identities = 290/342 (85%), Positives = 320/342 (94%), Gaps = 1/342 (0%) Frame = +3 @@ -562,7 +562,7 @@ Length=4301 - Score = 151 bits (342), Expect(2) = 1e-72, Method: Compositional matrix adjust. + Score = 151 bits (342), Expect(2) = 1e-72, Method: Compositional matrix adjust. Identities = 69/74 (93%), Positives = 73/74 (99%), Gaps = 0/74 (0%) Frame = +3 @@ -575,7 +575,7 @@ Sbjct 3327 SIYNPVIYIMMNKQ 3368 - Score = 126 bits (284), Expect(2) = 1e-72, Method: Compositional matrix adjust. + Score = 126 bits (284), Expect(2) = 1e-72, Method: Compositional matrix adjust. Identities = 54/59 (92%), Positives = 57/59 (97%), Gaps = 0/59 (0%) Frame = +2 @@ -584,7 +584,7 @@ Sbjct 2855 RYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEVRS 3031 - Score = 229 bits (523), Expect = 9e-67, Method: Compositional matrix adjust. + Score = 229 bits (523), Expect = 9e-67, Method: Compositional matrix adjust. Identities = 107/111 (96%), Positives = 109/111 (98%), Gaps = 0/111 (0%) Frame = +1 @@ -597,7 +597,7 @@ Sbjct 181 PLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGG 333 - Score = 122 bits (276), Expect = 1e-32, Method: Compositional matrix adjust. + Score = 122 bits (276), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 55/59 (93%), Positives = 56/59 (95%), Gaps = 0/59 (0%) Frame = +3 @@ -636,7 +636,7 @@ Length=983 - Score = 658 bits (1517), Expect = 0.0, Method: Compositional matrix adjust. + Score = 658 bits (1517), Expect = 0.0, Method: Compositional matrix adjust. Identities = 310/326 (95%), Positives = 322/326 (99%), Gaps = 0/326 (0%) Frame = +1 @@ -686,7 +686,7 @@ Length=1047 - Score = 711 bits (1640), Expect = 0.0, Method: Compositional matrix adjust. + Score = 711 bits (1640), Expect = 0.0, Method: Compositional matrix adjust. Identities = 325/348 (93%), Positives = 337/348 (97%), Gaps = 0/348 (0%) Frame = +1 @@ -736,7 +736,7 @@ Length=1344 - Score = 626 bits (1444), Expect = 0.0, Method: Compositional matrix adjust. + Score = 626 bits (1444), Expect = 0.0, Method: Compositional matrix adjust. Identities = 281/342 (82%), Positives = 311/342 (91%), Gaps = 1/342 (0%) Frame = +2 |
| b |
| diff -r 697f40151eaf -r 577d9c12411a test-data/tblastn_four_human_vs_rhodopsin.tabular --- a/test-data/tblastn_four_human_vs_rhodopsin.tabular Fri Sep 04 09:45:57 2015 -0400 +++ b/test-data/tblastn_four_human_vs_rhodopsin.tabular Mon Sep 07 04:44:24 2015 -0400 |
| b |
| @@ -1,10 +1,10 @@ -sp|P08100|OPSD_HUMAN gi|57163782|ref|NM_001009242.1| 96.55 348 12 0 1 348 1 1044 0.0 732 -sp|P08100|OPSD_HUMAN gi|2734705|gb|U59921.1|BBU59921 84.80 342 51 1 1 341 42 1067 0.0 646 -sp|P08100|OPSD_HUMAN gi|283855845|gb|GQ290303.1| 93.24 74 5 0 239 312 3147 3368 1e-72 151 -sp|P08100|OPSD_HUMAN gi|283855845|gb|GQ290303.1| 91.53 59 5 0 177 235 2855 3031 1e-72 126 -sp|P08100|OPSD_HUMAN gi|283855845|gb|GQ290303.1| 96.40 111 4 0 11 121 1 333 9e-67 229 -sp|P08100|OPSD_HUMAN gi|283855845|gb|GQ290303.1| 93.22 59 4 0 119 177 1404 1580 1e-32 122 +sp|P08100|OPSD_HUMAN gi|57163782|ref|NM_001009242.1| 96.55 348 12 0 1 348 1 1044 0.0 732 +sp|P08100|OPSD_HUMAN gi|2734705|gb|U59921.1|BBU59921 84.80 342 51 1 1 341 42 1067 0.0 646 +sp|P08100|OPSD_HUMAN gi|283855845|gb|GQ290303.1| 93.24 74 5 0 239 312 3147 3368 1e-72 151 +sp|P08100|OPSD_HUMAN gi|283855845|gb|GQ290303.1| 91.53 59 5 0 177 235 2855 3031 1e-72 126 +sp|P08100|OPSD_HUMAN gi|283855845|gb|GQ290303.1| 96.40 111 4 0 11 121 1 333 9e-67 229 +sp|P08100|OPSD_HUMAN gi|283855845|gb|GQ290303.1| 93.22 59 4 0 119 177 1404 1580 1e-32 122 sp|P08100|OPSD_HUMAN gi|283855845|gb|GQ290303.1| 88.46 26 3 0 312 337 4222 4299 2e-12 57.7 -sp|P08100|OPSD_HUMAN gi|283855822|gb|GQ290312.1| 95.09 326 16 0 11 336 1 978 0.0 658 -sp|P08100|OPSD_HUMAN gi|18148870|dbj|AB062417.1| 93.39 348 23 0 1 348 1 1044 0.0 711 -sp|P08100|OPSD_HUMAN gi|12583664|dbj|AB043817.1| 82.16 342 60 1 1 341 23 1048 0.0 626 +sp|P08100|OPSD_HUMAN gi|283855822|gb|GQ290312.1| 95.09 326 16 0 11 336 1 978 0.0 658 +sp|P08100|OPSD_HUMAN gi|18148870|dbj|AB062417.1| 93.39 348 23 0 1 348 1 1044 0.0 711 +sp|P08100|OPSD_HUMAN gi|12583664|dbj|AB043817.1| 82.16 342 60 1 1 341 23 1048 0.0 626 |
| b |
| diff -r 697f40151eaf -r 577d9c12411a test-data/tblastn_four_human_vs_rhodopsin.xml --- a/test-data/tblastn_four_human_vs_rhodopsin.xml Fri Sep 04 09:45:57 2015 -0400 +++ b/test-data/tblastn_four_human_vs_rhodopsin.xml Mon Sep 07 04:44:24 2015 -0400 |
| b |
| @@ -2,7 +2,7 @@ <!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "http://www.ncbi.nlm.nih.gov/dtd/NCBI_BlastOutput.dtd"> <BlastOutput> <BlastOutput_program>tblastn</BlastOutput_program> - <BlastOutput_version>TBLASTN 2.2.30+</BlastOutput_version> + <BlastOutput_version>TBLASTN 2.2.31+</BlastOutput_version> <BlastOutput_reference>Stephen F. Altschul, Thomas L. Madden, Alejandro A. Sch&auml;ffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402.</BlastOutput_reference> <BlastOutput_db></BlastOutput_db> <BlastOutput_query-ID>Query_1</BlastOutput_query-ID> |
| b |
| diff -r 697f40151eaf -r 577d9c12411a test-data/tblastn_four_human_vs_rhodopsin_ext.tabular --- a/test-data/tblastn_four_human_vs_rhodopsin_ext.tabular Fri Sep 04 09:45:57 2015 -0400 +++ b/test-data/tblastn_four_human_vs_rhodopsin_ext.tabular Mon Sep 07 04:44:24 2015 -0400 |
| b |
| b'@@ -1,10 +1,10 @@\n-sp|P08100|OPSD_HUMAN\tgi|57163782|ref|NM_001009242.1|\t96.55\t348\t12\t0\t1\t348\t1\t1044\t0.0\t 732\tgi|57163782|ref|NM_001009242.1|\t1689\t336\t343\t0\t98.56\t0\t1\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\tMNGTEGPNFYVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTGSKTETSQVAPA\t348\t1047\tN/A\n-sp|P08100|OPSD_HUMAN\tgi|2734705|gb|U59921.1|BBU59921\t84.80\t342\t51\t1\t1\t341\t42\t1067\t0.0\t 646\tgi|2734705|gb|U59921.1|BBU59921\t1489\t290\t320\t1\t93.57\t0\t3\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEA-SATVSKTE\tMNGTEGPNFYIPMSNKTGVVRSPFEYPQYYLAEPWQYSILCAYMFLLILLGFPINFMTLYVTIQHKKLRTPLNYILLNLAFANHFMVLCGFTVTMYSSMNGYFILGATGCYVEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFSENHAVMGVAFTWIMALSCAVPPLLGWSRYIPEGMQCSCGVDYYTLKPEVNNESFVIYMFVVHFTIPLIIIFFCYGRLVCTVKEAAAQQQESATTQKAEKEVTRMVIIMVVFFLICWVPYASVAFFIFSNQGSEFGPIFMTVPAFFAKSSSIYNPVIYIMLNKQFRNCMITTLCCGKNPFGEDDASSAATSKTE\t348\t1574\tN/A\n-sp|P08100|OPSD_HUMAN\tgi|283855845|gb|GQ290303.1|\t93.24\t74\t5\t0\t239\t312\t3147\t3368\t1e-72\t 151\tgi|283855845|gb|GQ290303.1|\t342\t69\t73\t0\t98.65\t0\t3\tESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQ\tESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQ\t348\t4301\tN/A\n-sp|P08100|OPSD_HUMAN\tgi|283855845|gb|GQ290303.1|\t91.53\t59\t5\t0\t177\t235\t2855\t3031\t1e-72\t 126\tgi|283855845|gb|GQ290303.1|\t284\t54\t57\t0\t96.61\t0\t2\tRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAA\tRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEVRS\t348\t4301\tN/A\n-sp|P08100|OPSD_HUMAN\tgi|283855845|gb|GQ290303.1|\t96.40\t111\t4\t0\t11\t121\t1\t333\t9e-67\t 229\tgi|283855845|gb|GQ290303.1|\t523\t107\t109\t0\t98.20\t0\t1\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGG\tVPFSNKTGVVRSPFEHPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGG\t348\t4301\tN/A\n-sp|P08100|OPSD_HUMAN\tgi|283855845|gb|GQ290303.1|\t93.22\t59\t4\t0\t119\t177\t1404\t1580\t1e-32\t 122\tgi|283855845|gb|GQ290303.1|\t276\t55\t56\t0\t94.92\t0\t3\tLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSR\tLAGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLALTWVMALACAAPPLVGWSR\t348\t4301\tN/A\n+sp|P08100|OPSD_HUMAN\tgi|57163782|ref|NM_001009242.1|\t96.55\t348\t12\t0\t1\t348\t1\t1044\t0.0\t732\tgi|57163782|ref|NM_001009242.1|\t1689\t336\t343\t0\t98.56\t0\t1\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\tMNGTEGPNFYVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTGSKTETSQVAPA\t348\t1047\tN/A\n+sp|P08100|OPSD_HUMAN\tgi|2734705|gb|U59921.1|BBU59921\t84.80\t342\t51\t1\t1\t341\t42\t1067\t0.0\t646\tgi|2734705|gb|U59921.1|BBU59921\t1489\t290\t320\t1\t93.57\t0\t3\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYY'..b'IVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\tMNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQFSMLAAYMFLLIMLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTPHEETNNESFVIYMFVVHFIIPLIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSDFGPIFMTIPAFFAKTSAVYNPVIYIMMNKQFRNCMVTTLCCGKNPLGDDEASTTVSKTETSQVAPA\t348\t1047\tN/A\n-sp|P08100|OPSD_HUMAN\tgi|12583664|dbj|AB043817.1|\t82.16\t342\t60\t1\t1\t341\t23\t1048\t0.0\t 626\tgi|12583664|dbj|AB043817.1|\t1444\t281\t311\t1\t90.94\t0\t2\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPL-GDDEASATVSKTE\tMNGTEGPNFYIPMSNATGVVRSPFEYPQYYLAEPWAFSALSAYMFFLIIAGFPINFLTLYVTIEHKKLRTPLNYILLNLAVADLFMVFGGFTTTMYTSMHGYFVFGPTGCNIEGFFATLGGEIALWCLVVLAIERWMVVCKPVTNFRFGESHAIMGVMVTWTMALACALPPLFGWSRYIPEGLQCSCGIDYYTRAPGINNESFVIYMFTCHFSIPLAVISFCYGRLVCTVKEAAAQQQESETTQRAEREVTRMVVIMVISFLVCWVPYASVAWYIFTHQGSTFGPIFMTIPSFFAKSSALYNPMIYICMNKQFRHCMITTLCCGKNPFEEEDGASATSSKTE\t348\t1344\tN/A\n+sp|P08100|OPSD_HUMAN\tgi|283855822|gb|GQ290312.1|\t95.09\t326\t16\t0\t11\t336\t1\t978\t0.0\t658\tgi|283855822|gb|GQ290312.1|\t1517\t310\t322\t0\t98.77\t0\t1\tVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASAT\tVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVANLFMVFGGFTTTLYTSMHGYFVFGATGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLAFTWVMALACAAPPLAGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVVAFLICWLPYASVAFYIFTHQGSNFGPVFMTIPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTT\t348\t983\tN/A\n+sp|P08100|OPSD_HUMAN\tgi|18148870|dbj|AB062417.1|\t93.39\t348\t23\t0\t1\t348\t1\t1044\t0.0\t711\tgi|18148870|dbj|AB062417.1|\t1640\t325\t337\t0\t96.84\t0\t1\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA\tMNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQFSMLAAYMFLLIMLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTPHEETNNESFVIYMFVVHFIIPLIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSDFGPIFMTIPAFFAKTSAVYNPVIYIMMNKQFRNCMVTTLCCGKNPLGDDEASTTVSKTETSQVAPA\t348\t1047\tN/A\n+sp|P08100|OPSD_HUMAN\tgi|12583664|dbj|AB043817.1|\t82.16\t342\t60\t1\t1\t341\t23\t1048\t0.0\t626\tgi|12583664|dbj|AB043817.1|\t1444\t281\t311\t1\t90.94\t0\t2\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPL-GDDEASATVSKTE\tMNGTEGPNFYIPMSNATGVVRSPFEYPQYYLAEPWAFSALSAYMFFLIIAGFPINFLTLYVTIEHKKLRTPLNYILLNLAVADLFMVFGGFTTTMYTSMHGYFVFGPTGCNIEGFFATLGGEIALWCLVVLAIERWMVVCKPVTNFRFGESHAIMGVMVTWTMALACALPPLFGWSRYIPEGLQCSCGIDYYTRAPGINNESFVIYMFTCHFSIPLAVISFCYGRLVCTVKEAAAQQQESETTQRAEREVTRMVVIMVISFLVCWVPYASVAWYIFTHQGSTFGPIFMTIPSFFAKSSALYNPMIYICMNKQFRHCMITTLCCGKNPFEEEDGASATSSKTE\t348\t1344\tN/A\n' |
| b |
| diff -r 697f40151eaf -r 577d9c12411a test-data/tblastx_rhodopsin_vs_three_human.tabular --- a/test-data/tblastx_rhodopsin_vs_three_human.tabular Fri Sep 04 09:45:57 2015 -0400 +++ b/test-data/tblastx_rhodopsin_vs_three_human.tabular Mon Sep 07 04:44:24 2015 -0400 |
| b |
| b'@@ -1,57 +1,57 @@\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t97.39\t230\t6\t0\t1\t690\t88\t777\t0.0\t 559\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t94.12\t102\t6\t0\t742\t1047\t829\t1134\t0.0\t 236\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t91.22\t148\t13\t0\t1046\t603\t1133\t690\t0.0\t 308\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t94.32\t88\t5\t0\t566\t303\t653\t390\t0.0\t 207\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t96.34\t82\t3\t0\t248\t3\t335\t90\t0.0\t 182\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t83.33\t204\t34\t0\t18\t629\t105\t716\t4e-158\t 404\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t75.28\t89\t22\t0\t780\t1046\t867\t1133\t4e-158\t 161\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t81.28\t203\t38\t0\t609\t1\t696\t88\t5e-153\t 360\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t80.60\t67\t13\t0\t916\t716\t1003\t803\t5e-153\t 135\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t97.39\t230\t6\t0\t1\t690\t88\t777\t0.0\t559\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t91.22\t148\t13\t0\t1046\t603\t1133\t690\t0.0\t308\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t94.12\t102\t6\t0\t742\t1047\t829\t1134\t0.0\t236\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t94.32\t88\t5\t0\t566\t303\t653\t390\t0.0\t207\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t96.34\t82\t3\t0\t248\t3\t335\t90\t0.0\t182\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t83.33\t204\t34\t0\t18\t629\t105\t716\t4e-158\t404\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t75.28\t89\t22\t0\t780\t1046\t867\t1133\t4e-158\t161\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t81.28\t203\t38\t0\t609\t1\t696\t88\t5e-153\t360\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t80.60\t67\t13\t0\t916\t716\t1003\t803\t5e-153\t135\n gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t70.27\t37\t11\t0\t1047\t937\t1134\t1024\t5e-153\t64.2\n gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t100.00\t7\t0\t0\t646\t626\t733\t713\t5e-153\t24.0\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t89.23\t65\t7\t0\t460\t266\t547\t353\t4e-105\t 167\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t89.58\t48\t5\t0\t184\t41\t271\t128\t4e-105\t 104\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t89.23\t65\t7\t0\t460\t266\t547\t353\t4e-105\t167\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t89.58\t48\t5\t0\t184\t41\t271\t128\t4e-105\t104\n gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t77.78\t45\t10\t0\t882\t748\t969\t835\t4e-105\t93.9\n gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t67.86\t28\t9\t0\t1045\t962\t1132\t1049\t4e-105\t51.9\n gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t59.09\t22\t9\t0\t586\t521\t673\t608\t4e-105\t33.1\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t81.40\t86\t16\t0\t296\t553\t383\t640\t2e-87\t 185\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t81.40\t86\t16\t0\t296\t553\t383\t640\t2e-87\t185\n gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t84.38\t32\t5\t0\t11\t106\t98\t193\t2e-87\t74.8\n gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t71.43\t35\t10\t0\t941\t1045\t1028\t1132\t2e-87\t61.6\n gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t94.44\t18\t1\t0\t794\t847\t881\t934\t2e-87\t50.1\n-gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t83.61\t238\t39\t0\t18\t731\t64\t777\t0.0\t 507\n-gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t82.35\t85\t15\t0\t783\t1037\t829\t1083\t0.0\t 188\n-gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t70.96\t303\t88\t0\t925\t17\t971\t63\t2e-130\t 435\n+gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t83.61\t238\t39\t0\t18\t731\t64\t777\t0.0\t507\n+gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t82.35\t85\t15\t0\t783\t1037\t829\t1083\t0.0\t188\n+gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t70.96\t303\t88\t0\t925\t17\t971\t63\t2e-130\t435\n gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t72.22\t18\t5\t0\t1027\t974\t1073\t1020\t2e-130\t35.0\n-gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t55.32\t188\t84\t0\t605\t42\t651\t88\t7e-89\t 245\n+gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t55.32\t188\t84\t0\t605'..b'6e-102\t32.7\n@@ -87,16 +87,16 @@\n gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t81.40\t43\t8\t0\t404\t532\t521\t649\t4e-48\t47.3\n gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t88.89\t18\t2\t0\t764\t817\t881\t934\t4e-48\t44.6\n gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t87.50\t8\t1\t0\t935\t958\t1052\t1075\t4e-48\t21.7\n-gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t93.91\t230\t14\t0\t1\t690\t88\t777\t0.0\t 538\n-gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t91.18\t102\t9\t0\t742\t1047\t829\t1134\t0.0\t 233\n-gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t88.83\t188\t21\t0\t566\t3\t653\t90\t0.0\t 394\n-gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t84.06\t138\t22\t0\t1046\t633\t1133\t720\t0.0\t 260\n-gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t67.11\t228\t75\t0\t684\t1\t771\t88\t7e-132\t 333\n-gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t67.27\t110\t36\t0\t1045\t716\t1132\t803\t7e-132\t 141\n-gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t70.20\t151\t45\t0\t3\t455\t90\t542\t1e-128\t 236\n-gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t64.04\t89\t32\t0\t780\t1046\t867\t1133\t1e-128\t 136\n-gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t66.22\t74\t25\t0\t510\t731\t597\t818\t1e-128\t 111\n-gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t66.04\t106\t36\t0\t242\t559\t329\t646\t2e-58\t 161\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t93.91\t230\t14\t0\t1\t690\t88\t777\t0.0\t538\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t88.83\t188\t21\t0\t566\t3\t653\t90\t0.0\t394\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t84.06\t138\t22\t0\t1046\t633\t1133\t720\t0.0\t260\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t91.18\t102\t9\t0\t742\t1047\t829\t1134\t0.0\t233\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t67.11\t228\t75\t0\t684\t1\t771\t88\t7e-132\t333\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t67.27\t110\t36\t0\t1045\t716\t1132\t803\t7e-132\t141\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t70.20\t151\t45\t0\t3\t455\t90\t542\t1e-128\t236\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t64.04\t89\t32\t0\t780\t1046\t867\t1133\t1e-128\t136\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t66.22\t74\t25\t0\t510\t731\t597\t818\t1e-128\t111\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t66.04\t106\t36\t0\t242\t559\t329\t646\t2e-58\t161\n gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t85.71\t21\t3\t0\t92\t154\t179\t241\t2e-58\t53.8\n gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t73.68\t19\t5\t0\t791\t847\t878\t934\t2e-58\t39.1\n gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t61.29\t62\t24\t0\t424\t239\t511\t326\t4e-55\t81.3\n@@ -104,11 +104,11 @@\n gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t65.71\t35\t12\t0\t882\t778\t969\t865\t4e-55\t56.3\n gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t58.14\t43\t18\t0\t649\t521\t736\t608\t4e-55\t50.6\n gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t66.67\t12\t4\t0\t972\t937\t1059\t1024\t4e-55\t23.9\n-gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t82.13\t235\t42\t0\t11\t715\t76\t780\t0.0\t 498\n-gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t78.31\t83\t18\t0\t770\t1018\t835\t1083\t0.0\t 177\n-gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t72.29\t332\t92\t0\t1017\t22\t1082\t87\t1e-150\t 516\n-gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t48.30\t147\t76\t0\t712\t272\t777\t337\t2e-98\t 169\n-gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t54.17\t72\t33\t0\t1030\t815\t1095\t880\t2e-98\t 103\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t82.13\t235\t42\t0\t11\t715\t76\t780\t0.0\t498\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t78.31\t83\t18\t0\t770\t1018\t835\t1083\t0.0\t177\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t72.29\t332\t92\t0\t1017\t22\t1082\t87\t1e-150\t516\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t48.30\t147\t76\t0\t712\t272\t777\t337\t2e-98\t169\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t54.17\t72\t33\t0\t1030\t815\t1095\t880\t2e-98\t103\n gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t47.83\t69\t36\t0\t220\t14\t285\t79\t2e-98\t83.5\n gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t72.00\t25\t7\t0\t782\t708\t847\t773\t2e-98\t45.1\n gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t56.00\t75\t33\t0\t532\t756\t597\t821\t5e-65\t87.7\n' |
| b |
| diff -r 697f40151eaf -r 577d9c12411a test-data/three_human_mRNA.dbinfo.txt --- a/test-data/three_human_mRNA.dbinfo.txt Fri Sep 04 09:45:57 2015 -0400 +++ b/test-data/three_human_mRNA.dbinfo.txt Mon Sep 07 04:44:24 2015 -0400 |
| b |
| @@ -1,7 +1,7 @@ Database: Just 3 human mRNA sequences 3 sequences; 10,732 total bases -Date: Dec 26, 2014 5:54 AM Longest sequence: 4,796 bases +Date: Jul 4, 2015 3:35 PM Longest sequence: 4,796 bases Volumes: - /mnt/galaxy/galaxy_blast/test-data/three_human_mRNA.fasta + /mnt/galaxy/repositories/galaxy_blast/test-data/three_human_mRNA.fasta |
| b |
| diff -r 697f40151eaf -r 577d9c12411a test-data/three_human_mRNA.fasta.nin |
| b |
| Binary file test-data/three_human_mRNA.fasta.nin has changed |
| b |
| diff -r 697f40151eaf -r 577d9c12411a tools/ncbi_blast_plus/README.rst --- a/tools/ncbi_blast_plus/README.rst Fri Sep 04 09:45:57 2015 -0400 +++ b/tools/ncbi_blast_plus/README.rst Mon Sep 07 04:44:24 2015 -0400 |
| b |
| @@ -221,6 +221,8 @@ v0.1.05 - Define ``parallelism`` tag via a macro (internal change only). - Define wrapper versions via a macro (internal change only). - Update citation information now GigaScience paper is out. +v0.1.06 - Now depends on ``package_blast_plus_2_2_31`` in ToolShed. + - Tests updated for BLAST+ 2.2.31 instead of BLAST+ 2.2.30. ======= ====================================================================== @@ -245,12 +247,12 @@ Planemo commands (which requires you have set your Tool Shed access details in ``~/.planemo.yml`` and that you have access rights on the Tool Shed):: - $ planemo shed_update --shed_target testtoolshed --check_diff ~/repositories/galaxy_blast/tools/ncbi_blast_plus/ + $ planemo shed_update -t testtoolshed --check_diff ~/repositories/galaxy_blast/tools/ncbi_blast_plus/ ... or:: - $ planemo shed_update --shed_target toolshed --check_diff ~/repositories/galaxy_blast/tools/ncbi_blast_plus/ + $ planemo shed_update -t toolshed --check_diff ~/repositories/galaxy_blast/tools/ncbi_blast_plus/ ... To just build and check the tar ball, use:: |
| b |
| diff -r 697f40151eaf -r 577d9c12411a tools/ncbi_blast_plus/ncbi_macros.xml --- a/tools/ncbi_blast_plus/ncbi_macros.xml Fri Sep 04 09:45:57 2015 -0400 +++ b/tools/ncbi_blast_plus/ncbi_macros.xml Mon Sep 07 04:44:24 2015 -0400 |
| b |
| @@ -1,5 +1,5 @@ <macros> - <token name="@WRAPPER_VERSION@">0.1.05</token> + <token name="@WRAPPER_VERSION@">0.1.06</token> <xml name="parallelism"> <!-- If job splitting is enabled, break up the query file into parts --> <parallelism method="multi" split_inputs="query" split_mode="to_size" split_size="1000" merge_outputs="output1" /> @@ -7,7 +7,7 @@ <xml name="preamble"> <requirements> <requirement type="binary">@BINARY@</requirement> - <requirement type="package" version="2.2.30">blast+</requirement> + <requirement type="package" version="2.2.31">blast+</requirement> </requirements> <stdio> <!-- Anything other than zero is an error --> |
| b |
| diff -r 697f40151eaf -r 577d9c12411a tools/ncbi_blast_plus/tool_dependencies.xml --- a/tools/ncbi_blast_plus/tool_dependencies.xml Fri Sep 04 09:45:57 2015 -0400 +++ b/tools/ncbi_blast_plus/tool_dependencies.xml Mon Sep 07 04:44:24 2015 -0400 |
| b |
| @@ -1,6 +1,6 @@ <?xml version="1.0"?> <tool_dependency> - <package name="blast+" version="2.2.30"> - <repository changeset_revision="0fe5d5c28ea2" name="package_blast_plus_2_2_30" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> + <package name="blast+" version="2.2.31"> + <repository changeset_revision="e36f75574aec" name="package_blast_plus_2_2_31" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> </package> </tool_dependency> |