| Previous changeset 24:64f11cf59c6e (2021-05-05) |
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Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bwa commit 8f4d108191d52e3b60212dfcc3f57541e5f849d0 |
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modified:
bwa-mem.xml bwa.xml read_group_macros.xml |
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| diff -r 64f11cf59c6e -r e188dc7a68e6 bwa-mem.xml --- a/bwa-mem.xml Wed May 05 18:22:08 2021 +0000 +++ b/bwa-mem.xml Fri Aug 19 18:51:56 2022 +0000 |
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| @@ -1,6 +1,9 @@ <?xml version="1.0"?> <tool id="bwa_mem" name="Map with BWA-MEM" version="@VERSION@.2"> <description>- map medium and long reads (> 100 bp) against reference genome</description> + <xrefs> + <xref type="bio.tools">bwa</xref> + </xrefs> <macros> <import>read_group_macros.xml</import> <import>bwa_macros.xml</import> |
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| diff -r 64f11cf59c6e -r e188dc7a68e6 bwa.xml --- a/bwa.xml Wed May 05 18:22:08 2021 +0000 +++ b/bwa.xml Fri Aug 19 18:51:56 2022 +0000 |
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| @@ -1,6 +1,9 @@ <?xml version="1.0"?> -<tool id="bwa" name="Map with BWA" version="@VERSION@.4"> +<tool id="bwa" name="Map with BWA" version="@VERSION@.5"> <description>- map short reads (< 100 bp) against reference genome</description> + <xrefs> + <xref type="bio.tools">bwa</xref> + </xrefs> <macros> <import>read_group_macros.xml</import> <import>bwa_macros.xml</import> @@ -126,6 +129,7 @@ -o ${$input_type.adv_pe_options.o} -n ${$input_type.adv_pe_options.n} -N ${$input_type.adv_pe_options.N} + -c ${$input_type.adv_pe_options.c} #end if @read_group_options@ #if str( $input_type.input_type_selector ) == "paired_collection": |
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| diff -r 64f11cf59c6e -r e188dc7a68e6 read_group_macros.xml --- a/read_group_macros.xml Wed May 05 18:22:08 2021 +0000 +++ b/read_group_macros.xml Fri Aug 19 18:51:56 2022 +0000 |
| [ |
| @@ -23,7 +23,7 @@ #import itertools #set $input_name1 = $clean($identifier_or_name($input1)) #set $input_name2 = $clean($identifier_or_name($input2)) - #set $common_prefix = ''.join([c[0] for c in itertools.takewhile(lambda x: all(x[0] == y for y in x), itertools.izip(*[$input_name1, $input_name2]))]) + #set $common_prefix = ''.join([c[0] for c in itertools.takewhile(lambda x: all(x[0] == y for y in x), zip(*[$input_name1, $input_name2]))]) #if len($common_prefix) > 3 #return $common_prefix #else |