Mercurial > repos > nml > metaspades

comparison metaspades.xml @ 3:2ecf5a570907 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/metaspades commit 92f173d5036d86d6fd689c65b5a0fc2586d37697"
author iuc
date Fri, 15 Jan 2021 12:28:26 +0000
parents 05c394313b1c
children ce02f513e598
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2:05c394313b1c 3:2ecf5a570907
6 <stdio> 6 <stdio>
7 <exit_code range="1:" /> 7 <exit_code range="1:" />
8 </stdio> 8 </stdio>
9 <command> 9 <command>
10 <![CDATA[ 10 <![CDATA[
11
12 if [[ -n \$GALAXY_MEMORY_MB ]]; then
13 GALAXY_MEMORY_GB=\$(( GALAXY_MEMORY_MB / 1024 ));
14 fi &&
15
11 ## A real command looks like: spades.py -k 21,33,55,77,99,127 --careful -1 Y.fastq.gz -2 X.fastq.gz -t 24 -o output 16 ## A real command looks like: spades.py -k 21,33,55,77,99,127 --careful -1 Y.fastq.gz -2 X.fastq.gz -t 24 -o output
12 spades.py -o . --disable-gzip-output --meta $onlyassembler -t \${GALAXY_SLOTS:-16} 17 spades.py -o . --disable-gzip-output --meta $onlyassembler -t \${GALAXY_SLOTS:-16} -m \${GALAXY_MEMORY_GB:-250}
13 #if not $kmer_choice.auto_kmer_choice: 18 #if not $kmer_choice.auto_kmer_choice:
14 -k "$kmer_choice.kmers" 19 -k "$kmer_choice.kmers"
15 #end if 20 #end if
16 ## Sequence files 21 ## Sequence files
17 #set num=1 22 #set num=1