Changes between Version 59 and Version 60 of SopConvertLifeLinesGenoData

Timestamp:

2013-02-08T08:37:41+01:00 (12 years ago)

Author:

Morris Swertz

Comment:

--

SopConvertLifeLinesGenoData

@@ -175 +175 @@
 2. Read manuals for use: http://www.molgenis.org/svn/standalone_tools/manuals/
 
-= Additional scripts ==
+= Additional scripts =
 
 Define the source folders (where data has been converted) and final destination (folder where data is served). Sometimes the name are different.
@@ -220 +220 @@
 
 rm /target/gpfs2/lifelines-genome/home/${targets[i]}/temp*
+rm /target/gpfs2/lifelines-genome/home/${targets[i]}/imputed/test*
+rm /target/gpfs2/lifelines-genome/home/${targets[i]}/jobs*
 chown -R $user /target/gpfs2/lifelines-genome/home/${targets[i]}/*
 chmod -R a-rw /target/gpfs2/lifelines-genome/home/${targets[i]}/*
@@ -229 +231 @@
 done
 }}}
+
+Count files to see if indeed all completed
+
+{{{
+for (( i=0; i<=$(( $total -1 )); i++ )) do
+if [ -d /target/gpfs2/lifelines-genome/home/${targets[i]}/ ] && [ -d /target/gpfs2/lifelines_rp/releases/LL3/${sources[i]}/ ]; then
+
+echo "${sources[i]} -> ${targets[i]}"
+echo "raw"
+ls -lah /target/gpfs2/lifelines_rp/releases/LL3/${sources[i]}/raw | wc -l
+ls -lah /target/gpfs2/lifelines-genome/home/${targets[i]}/raw | wc -l
+echo "imputed"
+ls -lah /target/gpfs2/lifelines_rp/releases/LL3/${sources[i]}/imputed | wc -l
+ls -lah /target/gpfs2/lifelines-genome/home/${targets[i]}/imputed | wc -l
+
+fi
+done
+}}}