=========================================================== .___ __ __ _________________ __ __ __| _/|__|/ |_ / ___\_` __ \__ \ | | \/ __ | | \\_ __\ / /_/ > | \// __ \| | / /_/ | | || | \___ /|__| (____ /____/\____ | |__||__| /_____/ \/ \/ grep rough audit - static analysis tool v2.8 written by @Wireghoul =================================[justanotherhacker.com]=== placnet-1.03/debian/get-orig-source-14-set -e placnet-1.03/debian/get-orig-source:15:NAME=`dpkg-parsechangelog | awk '/^Source/ { print $2 }'` placnet-1.03/debian/get-orig-source:16:VERSION=`dpkg-parsechangelog | awk '/^Version:/ { print $2 }' | sed 's/\([0-9\.]\+\)-[0-9]\+$/\1/'` placnet-1.03/debian/get-orig-source-17- ############################################## placnet-1.03/.pc/fix_usage_output.patch/placnet.pl-117- placnet-1.03/.pc/fix_usage_output.patch/placnet.pl:118: system("gmhmmp_heuristic.pl -s $contigsFile -out tmpGM -a"); placnet-1.03/.pc/fix_usage_output.patch/placnet.pl-119- $fastaProt = gm2fasta("tmpGM.lst"); placnet-1.03/.pc/fix_usage_output.patch/placnet.pl:120: system("gmhmmp_heuristic.pl -s $contigsFile -out tmpGM -d"); placnet-1.03/.pc/fix_usage_output.patch/placnet.pl-121- $fastaNucl = gm2fasta("tmpGM.lst"); ############################################## placnet-1.03/.pc/fix_usage_output.patch/placnet.pl-201- { placnet-1.03/.pc/fix_usage_output.patch/placnet.pl:202: system("blastn -query $contigsFile -db $refDBFile -out tmpMegaBlast.txt -num_alignments 0 -evalue 1e-25"); placnet-1.03/.pc/fix_usage_output.patch/placnet.pl-203- }elsif ($type eq "fasta") placnet-1.03/.pc/fix_usage_output.patch/placnet.pl-204- { placnet-1.03/.pc/fix_usage_output.patch/placnet.pl:205: system("makeblastdb -in $refDBFile -out tmpRefDB -dbtype nucl"); placnet-1.03/.pc/fix_usage_output.patch/placnet.pl:206: system("blastn -query $contigsFile -db tmpRefDB -out tmpMegaBlast.txt -num_alignments 0 -evalue 1e-25"); placnet-1.03/.pc/fix_usage_output.patch/placnet.pl-207- }else{ ############################################## placnet-1.03/.pc/fix_usage_output.patch/placnet.pl-383- placnet-1.03/.pc/fix_usage_output.patch/placnet.pl:384: system("makeblastdb -in $dbFastaFile -out $db -dbtype $dbType"); placnet-1.03/.pc/fix_usage_output.patch/placnet.pl-385- ############################################## placnet-1.03/.pc/fix_usage_output.patch/placnet.pl-395- { placnet-1.03/.pc/fix_usage_output.patch/placnet.pl:396: system("blastp -query $prefix.gm.faa -db $db -outfmt 6 -evalue $evalue -out tmp$name.blast -num_alignments 1"); placnet-1.03/.pc/fix_usage_output.patch/placnet.pl-397- }elsif ($dbType eq "nucl") placnet-1.03/.pc/fix_usage_output.patch/placnet.pl-398- { placnet-1.03/.pc/fix_usage_output.patch/placnet.pl:399: system("blastn -query $contigsFile -db $db -outfmt 6 -evalue $evalue -out tmp$name.blast -num_alignments 1"); placnet-1.03/.pc/fix_usage_output.patch/placnet.pl-400- } ############################################## placnet-1.03/placnet.pl-117- placnet-1.03/placnet.pl:118: system("gmhmmp_heuristic.pl -s $contigsFile -out tmpGM -a"); placnet-1.03/placnet.pl-119- $fastaProt = gm2fasta("tmpGM.lst"); placnet-1.03/placnet.pl:120: system("gmhmmp_heuristic.pl -s $contigsFile -out tmpGM -d"); placnet-1.03/placnet.pl-121- $fastaNucl = gm2fasta("tmpGM.lst"); ############################################## placnet-1.03/placnet.pl-201- { placnet-1.03/placnet.pl:202: system("blastn -query $contigsFile -db $refDBFile -out tmpMegaBlast.txt -num_alignments 0 -evalue 1e-25"); placnet-1.03/placnet.pl-203- }elsif ($type eq "fasta") placnet-1.03/placnet.pl-204- { placnet-1.03/placnet.pl:205: system("makeblastdb -in $refDBFile -out tmpRefDB -dbtype nucl"); placnet-1.03/placnet.pl:206: system("blastn -query $contigsFile -db tmpRefDB -out tmpMegaBlast.txt -num_alignments 0 -evalue 1e-25"); placnet-1.03/placnet.pl-207- }else{ ############################################## placnet-1.03/placnet.pl-383- placnet-1.03/placnet.pl:384: system("makeblastdb -in $dbFastaFile -out $db -dbtype $dbType"); placnet-1.03/placnet.pl-385- ############################################## placnet-1.03/placnet.pl-395- { placnet-1.03/placnet.pl:396: system("blastp -query $prefix.gm.faa -db $db -outfmt 6 -evalue $evalue -out tmp$name.blast -num_alignments 1"); placnet-1.03/placnet.pl-397- }elsif ($dbType eq "nucl") placnet-1.03/placnet.pl-398- { placnet-1.03/placnet.pl:399: system("blastn -query $contigsFile -db $db -outfmt 6 -evalue $evalue -out tmp$name.blast -num_alignments 1"); placnet-1.03/placnet.pl-400- }