sarek
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Snpeff databases can not be downloaded
Description of the bug
As Microsoft no longer provides the snpeff databases the download of the databases throws an error.
According to this issue the newer version 5.3 of snpeff can download the databases correctly.
Command used and terminal output
Caused by:
Process `NFCORE_SAREK:DOWNLOAD_CACHE_SNPEFF_VEP:SNPEFF_DOWNLOAD (GRCh38.105)` terminated with an error exit status (255)
Command executed:
snpEff \
-Xmx28800M \
download GRCh38.105 \
-dataDir ${PWD}/snpeff_cache \
cat <<-END_VERSIONS > versions.yml
"NFCORE_SAREK:DOWNLOAD_CACHE_SNPEFF_VEP:SNPEFF_DOWNLOAD":
snpeff: $(echo $(snpEff -version 2>&1) | cut -f 2 -d ' ')
END_VERSIONS
Command exit status:
255
Command output:
(empty)
Command error:
00:00:00 ERROR while connecting to https://snpeff.blob.core.windows.net/databases/v5_1/snpEff_v5_1_GRCh38.105.zip
00:00:00 ERROR while connecting to https://snpeff.blob.core.windows.net/databases/v5_0/snpEff_v5_0_GRCh38.105.zip
FATAL ERROR: Failed to download database from [https://snpeff.blob.core.windows.net/databases/v5_1/snpEff_v5_1_GRCh38.105.zip, https://snpeff.blob.core.windows.net/databases/v5_0/snpEff_v5_0_GRCh38.105.zip]
Relevant files
No response
System information
No response
I don't see 5.3 as a release on github or on bioconda yet unfortunately