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hoffmangroup / genomedata

The Genomedata format for storing large-scale functional genomics data.
https://genomedata.hoffmanlab.org/
GNU General Public License v2.0
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Repeated warning: dataset </supercontig_0/continuous> cannot be read, deflate filter is not available from genomedata-load #24

Open EricR86 opened 7 years ago

EricR86 commented 7 years ago

Original report (archived issue) by Eric Roberts (Bitbucket: ericr86, GitHub: ericr86).

$ genomedata-load --sizes --sequence /home/mkarimzadeh/Documents/RunSegwayProtocol/Data/GRCh38_EBV.chrom.sizes.tsv --track H3K4me3=/home/mkarimzadeh/Documents/RunSegwayProtocol/Data/bedGraphs/MapFilteredBedGraphs/ENCFF151DIJ_MM.1S_H3K4me3_UmapFiltered.bedGraph /home/mkarimzadeh/Documents/RunSegwayProtocol/Data/GenomeDataArchives/ENCFF151DIJ_MM.1S_H3K4me3.genomedata

warning: dataset </supercontig_0/continuous> cannot be read, deflate filter is not available
(repeated)

This error does not occur when perform the 4 seperate steps for loading a genomedata archive (e.g. load-seq).

EricR86 commented 7 years ago

Original comment by Michael Hoffman (Bitbucket: hoffman, GitHub: michaelmhoffman).

Does this happen when /home/mkarimzadeh/Documents/RunSegwayProtocol/Data/GenomeDataArchives/ENCFF151DIJ_MM.1S_H3K4me3.genomedata does not already exist?

Use the PYTHONWARNINGS environment variable to force an error and get a traceback.