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tk2 / RetroSeq

RetroSeq is a bioinformatics tool that searches for mobile element insertions from aligned reads in a BAM file and a library of reference transposable elements. Please read the wiki page (link below) for usage instructions. Also, there is a page on the wiki describing how the 1000 genomes CEU trio was carried out with the files and parameters used for the various steps.
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Useless use of greediness modifier '+' in regex #17

Open zine-el-aabidine opened 6 years ago

zine-el-aabidine commented 6 years ago

Hi

I ran retroseq.pl and i got the errors : Useless use of greediness modifier '+' in regex; marked by <-- HERE in m/^[0-9]{2}+ <-- HERE S/ at /home/eq_jcl/Projects/MNase_and_Sonicseq/contig_analysis_approche_2/retroseq//RetroSeq-master/bin/../RetroSeq/Utilities.pm line 190. Useless use of greediness modifier '+' in regex; marked by <-- HERE in m/[0-9]{2}+ <-- HERE S$/ at /home/eq_jcl/Projects/MNase_and_Sonicseq/contig_analysis_approche_2/retroseq//RetroSeq-master/bin/../RetroSeq/Utilities.pm line 195. Useless use of greediness modifier '+' in regex; marked by <-- HERE in m/^[0-9]{2}+ <-- HERE S/ at /home/eq_jcl/Projects/MNase_and_Sonicseq/contig_analysis_approche_2/retroseq//RetroSeq-master/bin/../RetroSeq/Utilities.pm line 204. Useless use of greediness modifier '+' in regex; marked by <-- HERE in m/[0-9]{2}+ <-- HERE S$/ at /home/eq_jcl/Projects/MNase_and_Sonicseq/contig_analysis_approche_2/retroseq//RetroSeq-master/bin/../RetroSeq/Utilities.pm line 209. Useless use of greediness modifier '+' in regex; marked by <-- HERE in m/[0-9]{2}+ <-- HERE S$/ at /home/eq_jcl/Projects/MNase_and_Sonicseq/contig_analysis_approche_2/retroseq//RetroSeq-master/bin/../RetroSeq/Utilities.pm line 218. Useless use of greediness modifier '+' in regex; marked by <-- HERE in m/^[0-9]{2}+ <-- HERE S/ at /home/eq_jcl/Projects/MNase_and_Sonicseq/contig_analysis_approche_2/retroseq//RetroSeq-master/bin/../RetroSeq/Utilities.pm line 219. Useless use of private variable in void context at /home/eq_jcl/Projects/MNase_and_Sonicseq/contig_analysis_approche_2/retroseq//RetroSeq-master/bin/retroseq.pl line 184.

Do you have an idea about how to solve this problem please.

Thank you

tk2 commented 5 years ago

Can you post the command that you ran?

rsFalse commented 6 months ago

perl 5.20 was effected, take a look: https://github.com/perl/perl5/issues/14857