Difference between revisions of "Gscope Project"

From Wikili
Jump to: navigation, search
Line 1: Line 1:
A [[Gscope]] Project is a directory tree containing at least following files (supposing REPERTOIREDUGENOME is /genomics/''MyProject'')
+
A [[Gscope]] Project is a directory tree containing flat files  
  
  /genomics/''MyProject''   (which stands for ./ in following lines)
+
suppose REPERTOIREDUGENOME is /genomics/''MyProject'' and the suffixe for each Gscope sequence name is BOX
  
   ./beton
+
  /genomics/''MyProject''/  (which stands for ./ in following lines)
 +
 
 +
   ./beton/
 
   ./beton/miniconfig
 
   ./beton/miniconfig
  
   ./fiches
+
   ./fiches/
   ./fiches/bornesdespabs
+
   ./fiches/bornesdespabs (contains the positions for BOX001 to BOX189)
 
   ./fiches/lesgenomescomplets
 
   ./fiches/lesgenomescomplets
 +
  ./fiches/..... (and other flat files)
  
   ./prottfa
+
   ./prottfa/
   ./protembl
+
  ./prottfa/BOX001
 +
  ./prottfa/BOX002
 +
  ./prottfa/......
 +
  ./prottfa/BOX189
 +
   ./protembl/    (with all BOX)
 
and/or  
 
and/or  
   ./nuctfa
+
   ./nuctfa/    (with all BOX)
   ./pnucembl
+
   ./pnucembl   (with all BOX)
  
 
and why not
 
and why not
   ./blastp
+
   ./blastp/    (with all BOX)
   ./tblastn
+
   ./tblastn/    (with all BOX)
   ./blastpMus_musculus
+
   ./blastpMus_musculus/    (with all BOX)
   ./blastpHomo_sapiens
+
   ./blastpHomo_sapiens/    (with all BOX)
  
   ./msf
+
   ./msf/                (with all BOX)
   ./msfMus_musculus
+
   ./msfMus_musculus/    (with all BOX)
  
 
etc.
 
etc.
  
 
All these directories and files are automatically created by Gscope.
 
All these directories and files are automatically created by Gscope.

Revision as of 11:48, 16 April 2009

A Gscope Project is a directory tree containing flat files

suppose REPERTOIREDUGENOME is /genomics/MyProject and the suffixe for each Gscope sequence name is BOX

 /genomics/MyProject/   (which stands for ./ in following lines)
 ./beton/
 ./beton/miniconfig
 ./fiches/
 ./fiches/bornesdespabs (contains the positions for BOX001 to BOX189) 
 ./fiches/lesgenomescomplets
 ./fiches/..... (and other flat files)
 ./prottfa/
 ./prottfa/BOX001
 ./prottfa/BOX002
 ./prottfa/......
 ./prottfa/BOX189
 ./protembl/    (with all BOX)

and/or

 ./nuctfa/     (with all BOX)
 ./pnucembl    (with all BOX)

and why not

 ./blastp/     (with all BOX)
 ./tblastn/    (with all BOX)
 ./blastpMus_musculus/    (with all BOX)
 ./blastpHomo_sapiens/    (with all BOX)
 ./msf/                (with all BOX)
 ./msfMus_musculus/    (with all BOX)

etc.

All these directories and files are automatically created by Gscope.