Latest
Open
RNA-Seq
ChIP-Seq
SNP
Assembly
Forum
Planet
All »
Home
Log In
Question: running error see below
0
gravatar for oneshop928
3.7 years ago by
oneshop928 • 0
European Union
oneshop928 • 0 wrote:

Dear Sir,

The running error is that The following line didn't have 4 columns: #track name="tb_knownGene" description="table browser query on knownGene" visibility=0 url=
software error • 592 views
ADD COMMENT • link •
modified 3.6 years ago by Jennifer Hillman Jackson ♦ 25k • written 3.7 years ago by oneshop928 • 0

Please try to describe better what you are doing, whot tools are you using, what Galaxy are you at (url) and other details that can help people giving you advice.

ADD REPLY • link written 3.7 years ago by Martin Čech ♦♦ 4.9k
0
gravatar for Jennifer Hillman Jackson
3.6 years ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

Most likely the input file to the tool contains a header line (the data was extracted from the UCSC table browser?). Certain tools do not accept this dataset formatting, even if the metadata is set to label certain rows as "Header lines".

So - Remove this track line header with the tool "Text manipulation -> Remove beginning of a file". (If you ever have a file with both a browser and a track line header, remove both). Then double check that the remainder of the file has consistent formatting (same number of columns for each row) if you have more problems. Tools like "Group" can help isolate where the problem is (which column), as the operations ("count" is the simplest) will present with errors if there are empty/missing columns.

Hopefully you solved the problem already or this helps, Jen, Galaxy team
ADD COMMENT • link written 3.6 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: 181 users visited in the last hour