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Full Discussion: loop through numbered filenames
Top Forums Shell Programming and Scripting loop through numbered filenames Post 302313251 by polly_falconer on Tuesday 5th of May 2009 06:27:58 AM
Old 05-05-2009
Ok - I've put some 'echo's in so I could diagnose the problem


Code:
1
chrom.mlinfo
chrom.mlprob
./assoc.sh: line 27:  4075 Segmentation fault      mach2qtl -d PC_full.dat -p PC_full.ped -i $infofile --probfile $probfile >PC_full_$i.txt
2
chrom.mlinfo
chrom.mlprob
./assoc.sh: line 27:  4076 Segmentation fault      mach2qtl -d PC_full.dat -p PC_full.ped -i $infofile --probfile $probfile >PC_full_$i.txt
3
chrom.mlinfo
chrom.mlprob
./assoc.sh: line 27:  4077 Segmentation fault      mach2qtl -d PC_full.dat -p PC_full.ped -i $infofile --probfile $probfile >PC_full_$i.txt
4
chrom.mlinfo
chrom.mlprob
./assoc.sh: line 27:  4078 Segmentation fault      mach2qtl -d PC_full.dat -p PC_full.ped -i $infofile --probfile $probfile >PC_full_$i.txt
5
chrom.mlinfo
chrom.mlprob
./assoc.sh: line 27:  4079 Segmentation fault      mach2qtl -d PC_full.dat -p PC_full.ped -i $infofile --probfile $probfile >PC_full_$i.txt
6
chrom.mlinfo
chrom.mlprob
./assoc.sh: line 27:  4080 Segmentation fault      mach2qtl -d PC_full.dat -p PC_full.ped -i $infofile --probfile $probfile >PC_full_$i.txt
7
chrom.mlinfo
chrom.mlprob
./assoc.sh: line 27:  4081 Segmentation fault      mach2qtl -d PC_full.dat -p PC_full.ped -i $infofile --probfile $probfile >PC_full_$i.txt
8
chrom.mlinfo
chrom.mlprob
./assoc.sh: line 27:  4082 Segmentation fault      mach2qtl -d PC_full.dat -p PC_full.ped -i $infofile --probfile $probfile >PC_full_$i.txt
9
chrom.mlinfo
chrom.mlprob
./assoc.sh: line 27:  4083 Segmentation fault      mach2qtl -d PC_full.dat -p PC_full.ped -i $infofile --probfile $probfile >PC_full_$i.txt
10
chrom.mlinfo
chrom.mlprob
./assoc.sh: line 27:  4084 Segmentation fault      mach2qtl -d PC_full.dat -p PC_full.ped -i $infofile --probfile $probfile >PC_full_$i.txt
11
chrom.mlinfo
chrom.mlprob
./assoc.sh: line 27:  4087 Segmentation fault      mach2qtl -d PC_full.dat -p PC_full.ped -i $infofile --probfile $probfile >PC_full_$i.txt
12
chrom.mlinfo
chrom.mlprob
./assoc.sh: line 27:  4088 Segmentation fault      mach2qtl -d PC_full.dat -p PC_full.ped -i $infofile --probfile $probfile >PC_full_$i.txt
13
chrom.mlinfo
chrom.mlprob
./assoc.sh: line 27:  4089 Segmentation fault      mach2qtl -d PC_full.dat -p PC_full.ped -i $infofile --probfile $probfile >PC_full_$i.txt
14
chrom.mlinfo
chrom.mlprob
./assoc.sh: line 27:  4090 Segmentation fault      mach2qtl -d PC_full.dat -p PC_full.ped -i $infofile --probfile $probfile >PC_full_$i.txt
15
chrom.mlinfo
chrom.mlprob
./assoc.sh: line 27:  4091 Segmentation fault      mach2qtl -d PC_full.dat -p PC_full.ped -i $infofile --probfile $probfile >PC_full_$i.txt
16
chrom.mlinfo
chrom.mlprob
./assoc.sh: line 27:  4092 Segmentation fault      mach2qtl -d PC_full.dat -p PC_full.ped -i $infofile --probfile $probfile >PC_full_$i.txt
17
chrom.mlinfo
chrom.mlprob
./assoc.sh: line 27:  4093 Segmentation fault      mach2qtl -d PC_full.dat -p PC_full.ped -i $infofile --probfile $probfile >PC_full_$i.txt
18
chrom.mlinfo
chrom.mlprob
./assoc.sh: line 27:  4094 Segmentation fault      mach2qtl -d PC_full.dat -p PC_full.ped -i $infofile --probfile $probfile >PC_full_$i.txt
19
chrom.mlinfo
chrom.mlprob
./assoc.sh: line 27:  4095 Segmentation fault      mach2qtl -d PC_full.dat -p PC_full.ped -i $infofile --probfile $probfile >PC_full_$i.txt
20
chrom.mlinfo
chrom.mlprob
./assoc.sh: line 27:  4096 Segmentation fault      mach2qtl -d PC_full.dat -p PC_full.ped -i $infofile --probfile $probfile >PC_full_$i.txt
21
chrom.mlinfo
chrom.mlprob
./assoc.sh: line 27:  4097 Segmentation fault      mach2qtl -d PC_full.dat -p PC_full.ped -i $infofile --probfile $probfile >PC_full_$i.txt
22
chrom.mlinfo
chrom.mlprob
./assoc.sh: line 27:  4098 Segmentation fault      mach2qtl -d PC_full.dat -p PC_full.ped -i $infofile --probfile $probfile >PC_full_$i.txt

so my incremental numbering is working put the value of 'i' is not being used in the filenames.

Code:
1
chrom.mlinfo
chrom.mlprob

should be:

Code:
1
chrom1.mlinfo
chrom1.mlprob

what am I doing wrong?

I've tried with and without double quotes (") around filenames.
 

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