v3.11

Added a fix for sample names containing a forward slash so that the download doesn't accidentally create a subfolder.

v3.10

Add more symbols to the list we don't allow in filenames to make downstream processing easier.

Add a timeout check for the ENA FTP download to combat stalls which some people have observed.

Added an increasing delay when trying downloads to work around temporary network glitches.

v3.9

Added an option to force fasterq-dump to use the specified outdir as its temporary dir so it doesn't write huge amounts of data into /var/tmp.

v3.8

Fix the ENA FTP download code so that long downloads don't stall and cause subsequent files to be lost.

v3.7

Add --include-technical to fasterq-dump options so that the barcode reads come down. This also fails on ENA but we can't do anything about that so you'll need to use --no-ena for the time being until they fix it at their end too.

v3.6

Changed the download behaviour so existing files are not overwritten by default. This can be overridden using the new option --force

v3.5

Add a fix for GEO sample names containing spaces or commas within a section.

v3.4

Allow bare accessions to be downloaded

sradownloader SRR5413015

Allow a list of accessions (rather an a complete RunTable) to be downloaded

Check for zero sized files before declaring success.

v3.3

Improve the error checking on the REST downloads to not trigger strange errors if the accession has not migrated to SRA yet.

v3.2

Changed the ENA download to use FTP instead of HTTP since some HTTP downloads were found to be unreliable and incomplete and the same problem didn't seem to occur with FTP.