GTF output allowed to print positions in scientific notation

jpromeror / EventPointer

R package for the identification and statistical analysis of alternative splicing events using junction arrays or RNASeq data

4 stars 0 forks source link

GTF output allowed to print positions in scientific notation #8

Closed tzuni closed 6 years ago

tzuni commented 6 years ago

Hi,

Thanks for this great tool!

I just ran into this issue where having generated a CDF file from the UCSC annotation for an HTA_2.0 array, the paths.gtf that was generated contained lines like this:

chr3    EventPointer    transcript      112996945       1.13e+08        0       +       0       gene_id 91653_4; transcript_id "Ref3"_Retained_Intron_91653_4; type "Retained Intron"; color=#B0B0B0;

This is out of spec for GTF so other tools like igvtools sort choke on 1.13e+08.

jpromeror commented 6 years ago

Hi @tzuni,

Thanks for reporting this bug!

I will try to correct the problem as soon as possible.

Best regards,

Juan Pablo

jpromeror commented 6 years ago

The problem is identified and will be resolved in the following commits!

Thanks!