Bug #92584 for bioperl: Add reason for failure of file IO in various files

Thu Jan 30 10:18:11 2014 mcgrath.martin [...] gmail.com - Ticket created

Subject:

Add reason for failure of file IO in various files

Hi, Within some of the Bio::Index modules (and scripts/seqstats/bp_oligo_count.pl) I found that the reason for failure of file open was not being reported. For consistency I've updated this to match the die/self->throw calls where $! is reported. Files changed: scripts/seqstats/bp_oligo_count.pl Bio/Index/EMBL.pm Bio/Index/Fasta.pm Bio/Index/Fastq.pm Bio/Index/GenBank.pm Bio/Index/Qual.pm Bio/Index/SwissPfam.pm This is addressed in pull request: https://github.com/bioperl/bioperl-live/pull/65 Thanks

Thu Jul 07 14:36:51 2016 cjfields [...] uiuc.edu - Correspondence added

This appears to be fixed in the latest release candidates, see current status of pull request: https://github.com/bioperl/bioperl-live/pull/65 Closing this ticket, feel free to resubmit this to the main BioPerl Github issues site: https://github.com/bioperl/bioperl-live/issues Thanks. On Thu Jan 30 09:18:11 2014, MARTO wrote: Show quoted text

> Hi, > > Within some of the Bio::Index modules (and > scripts/seqstats/bp_oligo_count.pl) I found that the reason for > failure of file open was not being reported. > For consistency I've updated this to match the die/self->throw calls > where $! is reported. > > Files changed: > > scripts/seqstats/bp_oligo_count.pl > Bio/Index/EMBL.pm > Bio/Index/Fasta.pm > Bio/Index/Fastq.pm > Bio/Index/GenBank.pm > Bio/Index/Qual.pm > Bio/Index/SwissPfam.pm > > This is addressed in pull request: > > https://github.com/bioperl/bioperl-live/pull/65 > > Thanks

Thu Jul 07 14:36:51 2016 The RT System itself - Status changed from 'new' to 'open'

Thu Jul 07 14:36:51 2016 cjfields [...] uiuc.edu - Status changed from 'open' to 'resolved'