Latest
Open
RNA-Seq
ChIP-Seq
SNP
Assembly
Forum
Planet
All »
Home
Log In
Question: Error message: "The number of labels does not match the number of BAM files", when running bamCoverage
0
gravatar for nhs
2.6 years ago by
nhs • 0
European Union
nhs • 0 wrote:

Hi

Running plotCoverage (Deeptools) on a single (or multiple) filtered BAM file(s) returns a completed job with the following error message:

empty format png database hg38 The number of labels does not match the number of BAM files.

what does labels cover in this context? and how can these be changed?

Thanks
software error deeptools labels bam • 853 views
ADD COMMENT • link •
modified 2.6 years ago by Jennifer Hillman Jackson ♦ 25k • written 2.6 years ago by nhs • 0

Hello, This is a known reported issue with no solution yet. The server/cluster issues from over the weekend are pending resolution. Once that is done, more testing can be done, and we will post more feedback about this particular error. Thanks for your patience during this upgrade phase at http://usegalaxy.org - Jen, Galaxy team

ADD REPLY • link written 2.6 years ago by Jennifer Hillman Jackson ♦ 25k
1
gravatar for Bjoern Gruening
2.6 years ago by
Bjoern Gruening ♦ 5.1k
Germany
Bjoern Gruening ♦ 5.1k wrote:

Jen this is fixed in one of the most recent deeptools releases. An update would be good. As background, deeptools is taking the dataset name as label. If the dataset name as whitespaces in it, it breaks in older releases. So a workaround would be to rename all bam files in your history to not container whitespaces.
ADD COMMENT • link written 2.6 years ago by Bjoern Gruening ♦ 5.1k

Thanks Bjoern!

Good to know about the work-around concerning the dataset name. A ticket to track the tool update is here for nhs: https://github.com/galaxyproject/galaxy/issues/2331

ADD REPLY • link written 2.6 years ago by Jennifer Hillman Jackson ♦ 25k
Please log in to add an answer.

Similar posts • Search »

Content
Help
Access
Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 175 users visited in the last hour