Question: Many errors on install : Zlib, Samtools, cutadapt, galaxy utils
2
gravatar for christophe.habib
3.0 years ago by
France
christophe.habib340 wrote:

Hello everyone,

I have many errors when I try to install some tools from the toolshed. Some of them were properly installed on an older instance. So I think the network may have changed some security rules. But I am not sure actually, and I have no idea about the way to proceed to find the origin of this problem.

I will list here the errors that I observe. Maybe you will have a clue about what is wrong with this local instance. My guess is that it is related to the network, but it could be that I lack some new libraries... I don't know.

package_zlib_1_2_8 , package_samtools_1_1 , cutadapt 1.6

Error     The installation directory for this tool dependency had contents but the database had no record. The installation log may show this tool dependency to be correctly installed, but due to the missing database record it is now being set to Error.

and another error galaxy utils 1.0.0 : A: Package Galaxy Utils error on installation

I hope that this errors are known, this is really troublesome for my work.

Thank you!

Christ

 

 

 

 

 

 

installation network error • 1.1k views
ADD COMMENTlink modified 3.0 years ago • written 3.0 years ago by christophe.habib340
0
gravatar for Jennifer Hillman Jackson
3.0 years ago by
United States
Jennifer Hillman Jackson25k wrote:

Hello, Are you running the the current Master branch of Galaxy? Was tool_dependency_dir defined in config/galaxy.ini then the server restarted? Thanks, Jen, Galaxy team

ADD COMMENTlink written 3.0 years ago by Jennifer Hillman Jackson25k

Hello! Yes I am running the current master branch for galaxy, and I defined a tool_dependency_dir in my galaxy.ini. Thanks, Christ

ADD REPLYlink written 3.0 years ago by christophe.habib340

Some changes were just implemented today a bit ago for at least one of these packages (Galaxy Utils). Could you try it now? Uninstall the originals (fully) then update: C: Package Galaxy Utils error on installation

ADD REPLYlink written 3.0 years ago by Jennifer Hillman Jackson25k
1

Hi Jen, I installed properly the galaxy utils package. But there is no change for the 3 others. Thanks for your help

ADD REPLYlink written 3.0 years ago by christophe.habib340

Our team is looking into the issues with the other packages. Please follow this Github ticket for progress: https://github.com/galaxyproject/tools-devteam/issues/283

Thanks again for reporting the problem! Jen

ADD REPLYlink written 3.0 years ago by Jennifer Hillman Jackson25k
0
gravatar for christophe.habib
3.0 years ago by
France
christophe.habib340 wrote:

Hello. Did you do something to correct this ? It seems that the 3 packages work fine now.

ADD COMMENTlink written 3.0 years ago by christophe.habib340

Our team is confirming this, but glad that it is working for you! Jen

ADD REPLYlink written 3.0 years ago by Jennifer Hillman Jackson25k
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