I have been able to get a working solution that produces my desired results... using set -x and the below modifications
Code:
if [[ $VCF = ${STRING[*]} ]] # only execute file on match
then
RSTRING=$(awk '/R_2019/' "$DIR"/run) ## search for lines matching R_2019 pattern
VCFRUN=$(awk -F '\n' -v RS="" -v ref="$VCF" '$0 ~ ref {print $NF}' "$DIR"/file) ## search file for matching $VCF and return last column ($2)
RUN="$(echo $RSTRING|cut -d- -f1,2,3)" ## remove after third _ in line with R_2019
mv "$DIR"/variants/${VCF}.vcf "$DEST"/"$RUN"/"$VCF"/variants ## move vcf to folder in destination
This matched each .vcf and moved the match to the correct run file. Maybe this will help others as well.
Thank you very much for your help .
Last edited by cmccabe; 04-09-2019 at 10:22 PM..
Reason: added comments
My input:
File_1:
2000_t
g1110.b1
abb.1
2001_t
g1111.b1
abb.2
abb.2
g1112.b1
abb.3
2002_t
.
.
File_2:
2000_t Ali england 135
abb.1 Zoe british 150
2001_t Ali england 305
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Discussion started by: cmccabe
2 Replies
LEARN ABOUT DEBIAN
rushlast
RUSHLAST(1) Gnurush RUSHLAST(1)NAME
rushlast - retrieve information of previous uses of rush
SYNOPSIS
rushlast [-F STRING] [-f DIR] [-n NUM] [--forward] [-H]
rushlast {-v | -h | --usage}
DESCRIPTION
rushlast is a utility to search backwards in the session history that GNU rush maintains about all users calling on its services.
OPTIONS -F STRING | --format=STRING
Use specified format string instead of the default string.
-f DIR | --file=DIR
Use database directory DIR. Default location is /var/lib/rush.
--forward
Display entries in chronological instead of reverse time order. The latter is the default mode of operation.
-n NUM | --count=NUM | -NUM
Show at most NUM records. The numerical form '-NUM' is to provide compatibility with the standard utility last(1).
-H | --no-header
Suppress the header line in printout.
-v | --version
Display program version.
-h | --help
Display a short help message.
--usage
Display a concise usage summary.
SEE ALSO
The full documentation for rushlast is maintained as a Texinfo manual. If the info and rush programs are properly installed at your site,
the command
info rush
should give you access to the complete manual.
See also rush(8) and rushwho(1).
AUTHOR
This text was written by Mats Erik Andersson for the Debian project, since the original source supplies a documentation only in the form of
a GNU Texinfo manual.
GNU Rush 1.7 December 2010 RUSHLAST(1)
04-09-2019
.