bcftools view no longer present?

Question: bcftools view no longer present?

4.1 years ago by

Canada

abogutz • 30 wrote:

I've got some old workflows that included the tool bcftools_view, and now they show an error with this message:

Unrecognized Tool: toolshed.g2.bx.psu.edu/repos/gregory-minevich/bcftools_view/bcftools_view/0.0.1

The tool id 'toolshed.g2.bx.psu.edu/repos/gregory-minevich/bcftools_view/bcftools_view/0.0.1' for this tool is unrecognized.

To save this workflow, you will need to delete this step or enable the tool.

Any idea what's going on?

snp galaxy samtools • 1.4k views

ADD COMMENT • link •

modified 3.4 years ago by Martin Čech ♦♦ 4.9k • written 4.1 years ago by abogutz • 30

3.4 years ago by

Martin Čech ♦♦ 4.9k

United States

Martin Čech ♦♦ 4.9k wrote:

The problem has been resolved, the tool is available again.

ADD COMMENT • link written 3.4 years ago by Martin Čech ♦♦ 4.9k

4.1 years ago by

Bjoern Gruening ♦ 5.1k

Germany

Bjoern Gruening ♦ 5.1k wrote:

Hi,

this means that a tool that was installed from the Tool Shed is not available anymore. You can install it and everything should work.

Cheers,

Bjoern

ADD COMMENT • link written 4.1 years ago by Bjoern Gruening ♦ 5.1k

Thanks Bjoern. To be clear, does that mean that this tool will no longer be available on the main Galaxy instance?

ADD REPLY • link written 4.1 years ago by abogutz • 30

Oh it on Galaxy main? Is this workflow also from Galaxy main?

ADD REPLY • link written 4.1 years ago by Bjoern Gruening ♦ 5.1k

Yes, the workflow is on Galaxy Main.

ADD REPLY • link written 4.1 years ago by abogutz • 30

I used bcftools view on the main Galaxy instance in March or April this year, but today I see that it isn't there anymore. Has bcftools view been removed from the main Galaxy instance? Can someone from Galaxy please clarify this? Thanks!

ADD REPLY • link written 3.4 years ago by vanam • 30

I will ping someone from the Galaxy team. Thanks for reporting.

ADD REPLY • link written 3.4 years ago by Bjoern Gruening ♦ 5.1k

Hi all - We checked about the tool group missing from Main earlier today. Expect more feedback today in a few hours. Thanks, Jen, Galaxy team

ADD REPLY • link written 3.4 years ago by Jennifer Hillman Jackson ♦ 25k

Great. Thanks Jen!

ADD REPLY • link written 3.4 years ago by vanam • 30

Thanks Bjoern!

ADD REPLY • link written 3.4 years ago by vanam • 30

3.4 years ago by

jrichardalbert • 30

Canada

jrichardalbert • 30 wrote:

I am also experiencing this problem.

Thank you

ADD COMMENT • link written 3.4 years ago by jrichardalbert • 30

The problem has been resolved, the tool is available again.

ADD REPLY • link written 3.4 years ago by Martin Čech ♦♦ 4.9k

Bcftools view now up and running, thank you!

ADD REPLY • link written 3.4 years ago by jrichardalbert • 30

Great. Thanks Martin!

ADD REPLY • link written 3.4 years ago by vanam • 30

More information is pending, we'll post an update in a few hours. Thanks, Jen, Galaxy team

ADD REPLY • link written 3.4 years ago by Jennifer Hillman Jackson ♦ 25k

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