| Previous changeset 0:f036c7107601 (2011-06-07) Next changeset 2:2d86d5b112e8 (2011-07-14) |
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Commit message:
Migrated tool version 1.0.1 from old tool shed archive to new tool shed repository |
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modified:
roche454/runMapping.xml roche454/runMapping_cDNA.xml roche454/runMapping_cDNA_wrapper.pl roche454/runMapping_wrapper.pl roche454/suite_config.xml |
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| diff -r f036c7107601 -r 368a6ebebdde roche454/runMapping.xml --- a/roche454/runMapping.xml Tue Jun 07 17:50:32 2011 -0400 +++ b/roche454/runMapping.xml Tue Jun 07 17:51:04 2011 -0400 |
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| @@ -1,4 +1,4 @@ -<tool id="runMapping" name="runMapping" version="1.0.0"> +<tool id="runMapping" name="runMapping" version="1.0.1"> <description>Map Roche/454 reads to a reference using Newbler</description> <command interpreter='perl'>runMapping_wrapper.pl $newbler_metrics.extra_files_path |
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| diff -r f036c7107601 -r 368a6ebebdde roche454/runMapping_cDNA.xml --- a/roche454/runMapping_cDNA.xml Tue Jun 07 17:50:32 2011 -0400 +++ b/roche454/runMapping_cDNA.xml Tue Jun 07 17:51:04 2011 -0400 |
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| @@ -1,4 +1,4 @@ -<tool id="runMapping_cDNA" name="runMapping cDNA" version="1.0.0"> +<tool id="runMapping_cDNA" name="runMapping cDNA" version="1.0.1"> <description>Map Roche/454 reads to a reference using Newbler</description> <command interpreter='perl'>runMapping_cDNA_wrapper.pl $newbler_metrics.extra_files_path |
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| diff -r f036c7107601 -r 368a6ebebdde roche454/runMapping_cDNA_wrapper.pl --- a/roche454/runMapping_cDNA_wrapper.pl Tue Jun 07 17:50:32 2011 -0400 +++ b/roche454/runMapping_cDNA_wrapper.pl Tue Jun 07 17:51:04 2011 -0400 |
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| @@ -9,11 +9,11 @@ my $alignment_info=shift @ARGV; my $all_contigs_fasta=shift @ARGV; my $all_contigs_qual=shift @ARGV; -my $all_diffs=shift @ARGV -my $all_struct_vars=shift @ARGV -my $hc_diff=shift @ARGV -my $hc_struct_vars=shift @ARGV -my $mapping_qc=shift @ARGV +my $all_diffs=shift @ARGV; +my $all_struct_vars=shift @ARGV; +my $hc_diff=shift @ARGV; +my $hc_struct_vars=shift @ARGV; +my $mapping_qc=shift @ARGV; my $newbler_metrics=shift @ARGV; my $pair_align=shift @ARGV; my $read_status=shift @ARGV; |
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| diff -r f036c7107601 -r 368a6ebebdde roche454/runMapping_wrapper.pl --- a/roche454/runMapping_wrapper.pl Tue Jun 07 17:50:32 2011 -0400 +++ b/roche454/runMapping_wrapper.pl Tue Jun 07 17:51:04 2011 -0400 |
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| @@ -8,11 +8,11 @@ my $alignment_info=shift @ARGV; my $all_contigs_fasta=shift @ARGV; my $all_contigs_qual=shift @ARGV; -my $all_diffs=shift @ARGV -my $all_struct_vars=shift @ARGV -my $hc_diff=shift @ARGV -my $hc_struct_vars=shift @ARGV -my $mapping_qc=shift @ARGV +my $all_diffs=shift @ARGV; +my $all_struct_vars=shift @ARGV; +my $hc_diff=shift @ARGV; +my $hc_struct_vars=shift @ARGV; +my $mapping_qc=shift @ARGV; my $newbler_metrics=shift @ARGV; my $pair_align=shift @ARGV; my $read_status=shift @ARGV; |
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| diff -r f036c7107601 -r 368a6ebebdde roche454/suite_config.xml --- a/roche454/suite_config.xml Tue Jun 07 17:50:32 2011 -0400 +++ b/roche454/suite_config.xml Tue Jun 07 17:51:04 2011 -0400 |
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| @@ -1,4 +1,4 @@ -<suite id="roche454_toolsuite" name="Suite of Newbler tools" version="1.0.0"> +<suite id="roche454_toolsuite" name="Suite of Newbler tools" version="1.0.1"> <description>This suite contains Roche/454's Newbler and sff-fastq converter</description> <tool id="runAssembly" name="runAssembly" version="1.0.0"> <description>Assemble 454 gDNA reads</description> @@ -6,10 +6,10 @@ <tool id="runAssembly_cDNA" name="runAssembly cDNA" version="1.0.0"> <description>Assemble 454 cDNA reads</description> </tool> - <tool id="runMapping" name="runMapping" version="1.0.0"> + <tool id="runMapping" name="runMapping" version="1.0.1"> <description>Map 454 cDNA reads to reference</description> </tool> - <tool id="runMapping_cDNA" name="runMapping cDNA" version="1.0.0"> + <tool id="runMapping_cDNA" name="runMapping cDNA" version="1.0.1"> <description>Map 454 cDNA reads to reference</description> </tool> <tool id="sff_to_fastq" name="Sff to Fastq Converter" version="1.0.0"> |