# HG changeset patch
# User bgruening
# Date 1671825651 0
# Node ID 3ef480892a9fe56b1d1ff5409c50992dc01322a1
# Parent 690c2caa367ee78f5cc2d411fef42cdca4dd355a
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/gfastats commit 70ba23af483a5a7edc5d5b4205b32ff77773f87a
diff -r 690c2caa367e -r 3ef480892a9f gfastats.xml
--- a/gfastats.xml Mon Dec 05 12:20:31 2022 +0000
+++ b/gfastats.xml Fri Dec 23 20:00:51 2022 +0000
@@ -35,13 +35,14 @@
#end if
$mode_condition.discover_paths
-o dataset.$mode_condition.output_condition.out_format
- #if $mode_condition.output_condition.out_format == 'fasta'
+ #if $mode_condition.output_condition.out_format in ['fasta','fasta.gz']
#if $mode_condition.output_condition.line_length
--line-length $mode_condition.output_condition.line_length
#end if
- #else if $mode_condition.output_condition.out_format == 'fasta.gz'
- #if $mode_condition.output_condition.line_length
- --line-length $mode_condition.output_condition.line_length
+ #end if
+ #if $mode_condition.output_condition.out_format in ['gfa','gfa.gz']
+ #if $mode_condition.output_condition.terminal_overlaps_condition.terminal_overlaps_select == 'yes':
+ --discover-terminal-overlaps $mode_condition.output_condition.terminal_overlaps_condition.terminal_overlaps_length
#end if
#end if
#else if $mode_condition.selector == "statistics"
@@ -55,6 +56,7 @@
--seq-report
$mode_condition.statistics_condition.out_sequence
#end if
+ $mode_condition.locale
$mode_condition.discover_paths
$mode_condition.tabular > '$stats'
#else
@@ -93,10 +95,10 @@
+ in 0-based bed format. It can be combined with --exclude-bed. Optional."/>
+ help="Exclude a subset of headers or coordinates in 0-base bed format. It can be conmbined with --include-bed. Optional."/>
@@ -128,19 +130,23 @@
-
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@@ -175,6 +181,8 @@
label="Report actual sequence" help="It reports also the actual sequence"/>
+
-
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-
-
@@ -237,10 +241,11 @@
+
@@ -252,6 +257,7 @@
+