fastq table damaged -> fastq download broken

[ringprince]

The fastq table seems damaged as it only contains two columns:

> dbGetQuery(sra_con, 'PRAGMA TABLE_INFO(fastq)')
  cid          name    type notnull dflt_value pk
1   0 run_accession    TEXT       0       <NA>  0
2   1   FASTQ_FILES INTEGER       0       <NA>  0

As a result downloading fastq is broken.

[seandavi]

Sorry to take so long to get to this one.

The fastq table contains only the number of fastq files, not the actual locations. The getFASTQinfo and getFASTQfile functions do the actual work. If you notice problems with the fastq downloading functions, could you get back to us with an example?