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[GUSDEV] Blast Similarities
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From: Adhemar Z. N. <ad...@cp...> - 2006-07-16 02:00:36
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I'm trying to upload some blast results following a manual created by Pablo, from Jessica's Lab. at UGA. <br /><br />The problem is that the perl script '<font size=3D"2"><span style=3D"font-family: courier new,courier,monospace;">parseBlastFilesForSimilarity.pl' </span></font>isn't working.<br /><br />Here is the error:<br /><br /><font size=3D"2"><span style=3D"font-family: courier new,courier,monospace;">perl parseBlastFilesForSimilarity.pl --regex=3D'(\S+)'</span><br style=3D"font-family: courier new,courier,monospace;" /><span style=3D"font-family: courier new,courier,monospace;">--outputFile=3D/home/japonicum/JaponicumDB/PROJEC= TS_INFO/BLAST/SJest.VS.SJcontigs/SJest.VS.SJcontigs.PARSED</span><br style=3D"font-family: courier new,courier,monospace;" /><span style=3D"font-family: courier new,courier,monospace;">--dir=3D/home/japonicum/JaponicumDB/PROJECTS_INFO= /BLAST/SJest.VS.SJcontigs/SJest.VS.SJcontigs.RESULTS</span><br style=3D"font-family: courier new,courier,monospace;" /><span style=3D"font-family: courier new,courier,monospace;">Opening</span><br style=3D"font-family: courier new,courier,monospace;" /><span style=3D"font-family: courier new,courier,monospace;">/home/japonicum/JaponicumDB/PROJECTS_INFO/BLAST/S= Jest.VS.SJcontigs/SJest.VS.SJcontigs.PARSED</span><br style=3D"font-family: courier new,courier,monospace;" /><span style=3D"font-family: courier new,courier,monospace;">/home/japonicum/JaponicumDB/PROJECTS_INFO/BLAST/S= Jest.VS.SJcontigs/SJest.VS.SJcontigs.PARSED</span><br style=3D"font-family: courier new,courier,monospace;" /><span style=3D"font-family: courier new,courier,monospace;">is open</span><br style=3D"font-family: courier new,courier,monospace;" /><span style=3D"font-family: courier new,courier,monospace;">Cutoff parameters:</span><br style=3D"font-family: courier new,courier,monospace= ;" /><span style=3D"font-family: courier new,courier,monospace;">=A0P value: 1e-05</span><br style=3D"font-family: courier new,courier,monospace;" /><span style=3D"font-family: courier new,courier,monospace;">=A0Length: 10</span><br style=3D"font-family: courier new,courier,monospace;" /><spa= n style=3D"font-family: courier new,courier,monospace;">=A0Percent Identity= : 20</span><br style=3D"font-family: courier new,courier,monospace;" /><br style=3D"font-family: courier new,courier,monospace;" /><br style=3D"font-family: courier new,courier,monospace;" /><span style=3D"font-family: courier new,courier,monospace;">Analyzing</span><br style=3D"font-family: courier new,courier,monospace;" /><span style=3D"font-family: courier new,courier,monospace;">opening</span><br style=3D"font-family: courier new,courier,monospace;" /><span style=3D"font-family: courier new,courier,monospace;">/home/japonicum/JaponicumDB/PROJECTS_INFO/BLAST/S= Jest.VS.SJcontigs/SJest.VS.SJcontigs.PARSED</span><br style=3D"font-family: courier new,courier,monospace;" /><span style=3D"font-family: courier new,courier,monospace;">Can't locate object method "new" via package "Blast::BlastAnal"</span><br style=3D"font-family: courier new,courier,monospace;" /><span style=3D"font-family: courier new,courier,monospace;">(perhaps you forgot= to load "Blast::BlastAnal"?) at</span><br style=3D"font-family: courier new,courier,monospace;" /><span style=3D"font-family: courier new,courier,monospace;">parseBlastFilesForSimilarity.pl line 81.</span></font><br />=A0<br />=A0<br />I would like to know how to fix = this script or to download a new version of the blast parse scripts.<br /><br />Thanks,<br /><br />Ad.<br /><br /> |
