[med-svn] r2440 - trunk/community/infrastructure/getData

[plessy at alioth.debian.org]

Author: plessy
Date: 2008-08-31 10:41:47 +0000 (Sun, 31 Aug 2008)
New Revision: 2440

Modified:
   trunk/community/infrastructure/getData/getData
Log:
Since $sharedWgetOptions has --no-host-directories, the script should not look in ftp.ebi.ac.uk.


Modified: trunk/community/infrastructure/getData/getData
===================================================================
--- trunk/community/infrastructure/getData/getData	2008-08-31 09:07:42 UTC (rev 2439)
+++ trunk/community/infrastructure/getData/getData	2008-08-31 10:41:47 UTC (rev 2440)
@@ -415,7 +415,7 @@
 		source => "wget $sharedWgetOptions ftp://ftp.ebi.ac.uk/pub/databases/swissprot/release_compressed/uniprot_trembl.dat.gz",
 		"post-download" => "d=uncompressed; if [ ! -d \$d ]; then mkdir \$d; fi; "
 				  ."rm -rf \$d/trembl.dat; "
-				  ."(find ftp.ebi.ac.uk -name '*.dat.gz' | xargs -r zcat ) > \$d/trembl.dat; "
+				  ."(find . -name '*.dat.gz' | xargs -r zcat ) > \$d/trembl.dat; "
 				  ."[ -x /usr/bin/dbxflat ] "
 				      . "&& cd \$d && "
 				      . "dbxflat -dbresource embl -dbname trembllocal -idformat swiss -filenames=trembl.dat -fields id,acc -auto",
@@ -428,7 +428,7 @@
 		source => "wget $sharedWgetOptions ftp://ftp.ebi.ac.uk/pub/databases/swissprot/release_compressed/uniprot_sprot.dat.gz ftp://ftp.ebi.ac.uk/pub/databases/swissprot/updates_compressed/*.dat.gz",
 		"post-download" => "d=uncompressed; if [ ! -d \$d ]; then mkdir \$d; fi; "
 				  ."rm -rf \$d/swissprot.dat; "
-				  ."(find ftp.ebi.ac.uk -name '*.dat.gz' | xargs -r zcat ) > \$d/swissprot.dat; "
+				  ."(find . -name '*.dat.gz' | xargs -r zcat ) > \$d/swissprot.dat; "
 				  ."[ -x /usr/bin/dbiflat ] && "
 				      . "cd \$d && "
 				      . "dbiflat -dbname swisslocal -fields acc,des -idformat swiss -auto",