Commit 2555a1a5 authored by Jerome Mariette's avatar Jerome Mariette
Browse files

modify -F F for blast filtering

parent c959ac6f
......@@ -4,7 +4,7 @@ classification = sequencing
[parameters]
; blast parameters
$;EXPECT$; = 1e-5
$;FILTER$; = T
$;FILTER$; = F
$;DATABASE_MATCHES$; = 150
$;DESCRIPTIONS$; = 150
$;OTHER_OPTS$; =
......
......@@ -4,7 +4,7 @@ classification = sequencing
[parameters]
; blast parameters
$;EXPECT$; = 1e-5
$;FILTER$; = T
$;FILTER$; = F
$;DATABASE_MATCHES$; = 150
$;DESCRIPTIONS$; = 150
$;OTHER_OPTS$; =
......
......@@ -4,7 +4,7 @@ classification = sequencing
[parameters]
; blast parameters
$;EXPECT$; = 1e-5
$;FILTER$; = T
$;FILTER$; = F
$;DATABASE_MATCHES$; = 150
$;DESCRIPTIONS$; = 150
$;OTHER_OPTS$; =
......
......@@ -4,7 +4,7 @@ classification = sequencing
[parameters]
; blast parameters
$;EXPECT$; = 1e-5
$;FILTER$; = T
$;FILTER$; = F
$;DATABASE_MATCHES$; = 150
$;DESCRIPTIONS$; = 150
$;OTHER_OPTS$; =
......
......@@ -4,7 +4,7 @@ classification = sequencing
[parameters]
; blast parameters
$;EXPECT$; = 1e-5
$;FILTER$; = T
$;FILTER$; = F
$;DATABASE_MATCHES$; = 150
$;DESCRIPTIONS$; = 150
$;OTHER_OPTS$; =
......
......@@ -4,7 +4,7 @@ classification = sequencing
[parameters]
; blast parameters
$;EXPECT$; = 1e-5
$;FILTER$; = T
$;FILTER$; = F
$;DATABASE_MATCHES$; = 150
$;DESCRIPTIONS$; = 150
$;OTHER_OPTS$; =
......
......@@ -4,7 +4,7 @@ classification = sequencing
[parameters]
; blast parameters
$;EXPECT$; = 1e-5
$;FILTER$; = T
$;FILTER$; = F
$;DATABASE_MATCHES$; = 150
$;DESCRIPTIONS$; = 150
$;OTHER_OPTS$; =
......
......@@ -4,7 +4,7 @@ classification = sequencing
[parameters]
; blast parameters
$;EXPECT$; = 1e-5
$;FILTER$; = T
$;FILTER$; = F
$;DATABASE_MATCHES$; = 150
$;DESCRIPTIONS$; = 150
$;OTHER_OPTS$; =
......
......@@ -8,7 +8,7 @@
<name>ncbi-blastn</name>
<state>incomplete</state>
<executable>$;BLASTALL_EXEC$;</executable>
<arg> -p blastn -i $;I_FILE_PATH$; -d $;LIST_ELT$; -e $;EXPECT$; -F '$;FILTER$;' -b $;DATABASE_MATCHES$; -v $;DESCRIPTIONS$; $;OTHER_OPTS$;</arg>
<arg> -p blastn -i $;I_FILE_PATH$; -d $;LIST_ELT$; -e $;EXPECT$; -F $;FILTER$; -b $;DATABASE_MATCHES$; -v $;DESCRIPTIONS$; $;OTHER_OPTS$;</arg>
<param>
<key>stdout</key>
<value>$;OUTPUT_DIRECTORY$;/$;ITERATOR_NAME$;/g$;GROUP_NUMBER$;/$;I_FILE_BASE$;.$;LIST_ELT_BASE$;.blast</value>
......@@ -30,7 +30,7 @@
<name>create names file</name>
<state>incomplete</state>
<executable>grep</executable>
<arg>-v "#" $;OUTPUT_DIRECTORY$;/$;ITERATOR_NAME$;/g$;GROUP_NUMBER$;/$;I_FILE_BASE$;.$;LIST_ELT_BASE$;.m8 | cut -f1</arg>
<arg>-v "#" $;OUTPUT_DIRECTORY$;/$;ITERATOR_NAME$;/g$;GROUP_NUMBER$;/$;I_FILE_BASE$;.$;LIST_ELT_BASE$;.m8 | cut -f1 | sort | uniq</arg>
<param>
<key>stdout</key>
<value>$;OUTPUT_DIRECTORY$;/$;ITERATOR_NAME$;/g$;GROUP_NUMBER$;/$;I_FILE_BASE$;.$;LIST_ELT_BASE$;.names</value>
......
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