+ added alignment reconstruction function
[qpalma.git] / scripts / est2gff_pipeline.sh
index ec98957..926df1d 100755 (executable)
@@ -20,7 +20,7 @@ do
    for STRAND in "+" "-"
    do
       echo $CHR $STRAND
-      result1_fn=/fml/ag-raetsch/home/fabio/tmp/transcriptome_data/SpliceGraphResults/gff/myexons_${CHR}${STRAND}.gff
+      result1_fn=/fml/ag-raetsch/home/fabio/tmp/transcriptome_data/SpliceGraphResults/gff/test_myexons_${CHR}${STRAND}.gff
       result2_fn=/dev/null
    
       /fml/ag-raetsch/home/fabio/svn/projects/splicing/gff/bin/psl2gff EST $alignment_file $CHR ${STRAND} $result1_fn $result2_fn $g_config 1>>LOG