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update ebi api url in fetch_sra_runinfo #26
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drpatelh
approved these changes
Jul 22, 2021
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Awesome! Thanks @alaindomissy :) I knew something like this was causing the tests to fail on the other PRs and you have saved me digging into it!! Getting used to these breaking changes from the EBI API...
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PR checklist
nf-core lint .
).nextflow run . -profile test,docker
).docs/usage.md
is updated.docs/output.md
is updated.CHANGELOG.md
is updated.README.md
is updated (including new tool citations and authors/contributors).The following test fails:
echo SRX681985 > id.txt
sra_ids_to_runinfo.py id.txt SRX681985&.runinfo.tsv
with this error:
ERROR: Connection failed
Error code '500'`, size: 2325 (max: 255)
replacing the ebi url path
from http://www.ebi.ac.uk/ena/data/warehouse/filereport
to https://www.ebi.ac.uk/ena/portal/api/filereport
prevents this error