Mercurial > repos > gandres > vcftools_filter_stats_diversity

comparison VCFToolFilter/vcfToolsFilter.sh @ 3:612066e3f57d draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author gandres
date Mon, 09 Nov 2015 05:18:45 -0500
parents ac7c9e40d601
children b762ecbe2314
comparison
equal deleted inserted replaced
2:ac7c9e40d601 3:612066e3f57d
1 #!/bin/bash 1 #!/bin/bash
2 2
3 tool_path=$(dirname $0) 3 tool_path=$(dirname $0)
4 4
5 filein=$1 5 filein=$1
6 fileout_label=$2 6 fileout_label=$(date "+%Y%m%d%H%M%S")
7 fileout=$3 7 fileout=$2
8 filelog=$4 8 filelog=$3
9 export=$5 9 export=$4
10 frequency=$6 10 frequency=$5
11 max_freq=$7 11 max_freq=$6
12 allow_missing=$8 12 allow_missing=$7
13 nb_alleles_min=$9 13 nb_alleles_min=$8
14 nb_alleles_max=${10} 14 nb_alleles_max=9
15 type=${11} 15 type=${10}
16 bound_start=${12} 16 bound_start=${11}
17 bound_end=${13} 17 bound_end=${12}
18 18
19 19
20 if [ "${14}" != "None" ] 20 if [ "${14}" != "None" ]
21 then samples="--samples ${14}" 21 then samples="--samples ${14}"
22 fi 22 fi