diff snpEff_2_1a/scripts/distro.sh @ 0:f8eaa3f8194b default tip

Uploaded snpEff_v2_1a_core.tgz from Pablo Cingolani

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/snpEff_2_1a/scripts/distro.sh	Fri Apr 20 14:47:09 2012 -0400
@@ -0,0 +1,47 @@
+#!/bin/sh
+
+#------------------------------------------------------------------------------
+# Create a zip file for distribution
+# Note: Only binary data is included (no raw gene info / genomes)
+#
+#                                      Pablo Cingolani 2010
+#------------------------------------------------------------------------------
+
+VERSION="2_1"
+VERSION_REV=$VERSION"a"
+DIR=$HOME/snpEff_$VERSION_REV
+rm -rvf $DIR
+mkdir $DIR
+
+# Copy core files
+cp snpEff.config snpEff.jar $DIR
+cp -rvfH galaxy scripts $DIR
+
+cd $DIR
+rm -rvf `find . -name "CVS" -type d`
+cd -
+
+# Create 'core' zip file
+cd $HOME
+ZIP="snpEff_v"$VERSION_REV"_core.zip"
+rm -f $ZIP 2> /dev/null
+zip -r $ZIP snpEff_$VERSION_REV
+cd -
+
+# Create ZIP file for each database
+for d in `ls data/*/snpEffectPredictor.bin`
+do
+	DIR=`dirname $d`
+	GEN=`basename $DIR`
+	
+	echo $GEN
+	ZIP="snpEff_v"$VERSION"_"$GEN".zip"
+	zip -r $ZIP data/$GEN/*.bin
+done
+
+# Look for missing genomes
+echo Missing genomes:
+ls -d data/*/snpEffectPredictor.bin | grep -v genomes | cut -f 2 -d / | sort > genomes_bins.txt
+ls -d data/* | grep -v genomes | cut -f 2 -d / | sort > genomes_dirs.txt
+diff genomes_dirs.txt genomes_bins.txt | grep "^<"
+