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TCP-Lab / x.FASTQ

Bash wrapper modules for the remote analysis of RNA-Seq data, with persistency features.
MIT License
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`metaharvest` does not handle well paired-end download URLs #13

Closed MrHedmad closed 8 months ago

MrHedmad commented 9 months ago

The API response for paired-end reads is FTP_URL_1;FTP_URL_2, so metaharvest makes the wrong urls.

One quick fix is to split the lines before parsing, but maybe we can use it somehow?

MrHedmad commented 9 months ago

As a quick'n'dirty fix, you can use:

cat urls.txt| sed 's/;/\nwget -nc ftp:\/\//g' > urls_filtered.txt

Assuming your URLs are in urls.txt.

MrHedmad commented 8 months ago

This was fixed in afe951b by implementing the above command.