1 new changeset in galaxy-central: http://bitbucket.org/galaxy/galaxy-central/changeset/e12237461b3e/ changeset: r5337:e12237461b3e user: kanwei date: 2011-04-04 18:55:33 summary: BLAST test changes affected #: 4 files (383 bytes) --- a/test-data/blastp_rhodopsin_vs_four_human.tabular Sun Apr 03 12:47:39 2011 -0400 +++ b/test-data/blastp_rhodopsin_vs_four_human.tabular Mon Apr 04 12:55:33 2011 -0400 @@ -1,6 +1,6 @@ -gi|57163783|ref|NP_001009242.1| Subject_4 96.55 348 12 0 1 348 1 348 0.0 679 -gi|3024260|sp|P56514.1|OPSD_BUFBU Subject_4 83.33 354 53 2 1 354 1 348 6e-178 605 -gi|283855846|gb|ADB45242.1| Subject_4 94.82 328 17 0 1 328 11 338 0.0 630 -gi|283855823|gb|ADB45229.1| Subject_4 94.82 328 17 0 1 328 11 338 0.0 630 -gi|223523|prf||0811197A Subject_4 93.10 348 23 1 1 347 1 348 0.0 651 -gi|12583665|dbj|BAB21486.1| Subject_4 81.09 349 65 1 1 349 1 348 2e-172 587 +gi|57163783|ref|NP_001009242.1| sp|P08100|OPSD_HUMAN 96.55 348 12 0 1 348 1 348 0.0 679 +gi|3024260|sp|P56514.1|OPSD_BUFBU sp|P08100|OPSD_HUMAN 83.33 354 53 2 1 354 1 348 6e-178 605 +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 2e-172 587 --- a/test-data/tblastn_four_human_vs_rhodopsin.tabular Sun Apr 03 12:47:39 2011 -0400 +++ b/test-data/tblastn_four_human_vs_rhodopsin.tabular Mon Apr 04 12:55:33 2011 -0400 @@ -1,10 +1,10 @@ -sp|P08100|OPSD_HUMAN Subject_1 96.55 348 12 0 1 348 1 1044 0.0 732 -sp|P08100|OPSD_HUMAN Subject_2 84.80 342 51 1 1 341 42 1067 0.0 646 -sp|P08100|OPSD_HUMAN Subject_3 93.24 74 5 0 239 312 3147 3368 1e-72 151 -sp|P08100|OPSD_HUMAN Subject_3 91.53 59 5 0 177 235 2855 3031 1e-72 126 -sp|P08100|OPSD_HUMAN Subject_3 96.40 111 4 0 11 121 1 333 1e-64 229 -sp|P08100|OPSD_HUMAN Subject_3 93.22 59 4 0 119 177 1404 1580 1e-32 122 -sp|P08100|OPSD_HUMAN Subject_3 88.46 26 3 0 312 337 4222 4299 6e-13 57.7 -sp|P08100|OPSD_HUMAN Subject_4 95.09 326 16 0 11 336 1 978 0.0 658 -sp|P08100|OPSD_HUMAN Subject_5 93.39 348 23 0 1 348 1 1044 0.0 711 -sp|P08100|OPSD_HUMAN Subject_6 82.16 342 60 1 1 341 23 1048 0.0 626 +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 1e-64 229 +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 6e-13 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 --- a/tools/ncbi_blast_plus/ncbi_blastp_wrapper.xml Sun Apr 03 12:47:39 2011 -0400 +++ b/tools/ncbi_blast_plus/ncbi_blastp_wrapper.xml Mon Apr 04 12:55:33 2011 -0400 @@ -133,6 +133,8 @@ <param name="subject" value="rhodopsin_proteins.fasta" ftype="fasta" /><param name="database" value="" /><param name="evalue_cutoff" value="1e-8" /> + <param name="blast_type" value="blastp" /> + <param name="out_format" value="6" /><param name="adv_opts_selector" value="advanced" /><param name="filter_query" value="True" /><param name="matrix" value="BLOSUM62" /> --- a/tools/ncbi_blast_plus/ncbi_tblastn_wrapper.xml Sun Apr 03 12:47:39 2011 -0400 +++ b/tools/ncbi_blast_plus/ncbi_tblastn_wrapper.xml Mon Apr 04 12:55:33 2011 -0400 @@ -138,7 +138,7 @@ <output name="output1" file="tblastn_four_human_vs_rhodopsin.tabular" ftype="tabular" /></test><test> - <!-- Same as above, but parse deflines --> + <!-- Same as above, but parse deflines - on BLAST 2.2.25+ makes no difference --><param name="query" value="four_human_proteins.fasta" ftype="fasta" /><param name="db_opts_selector" value="file" /><param name="subject" value="rhodopsin_nucs.fasta" ftype="fasta" /> @@ -151,7 +151,7 @@ <param name="max_hits" value="0" /><param name="word_size" value="0" /><param name="parse_deflines" value="true" /> - <output name="output1" file="tblastn_four_human_vs_rhodopsin_parse_deflines.tabular" ftype="tabular" /> + <output name="output1" file="tblastn_four_human_vs_rhodopsin.tabular" ftype="tabular" /></test></tests><help> Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.