Hello,
I am having a weird issue trying to push my tool (a wrapper for alevinQC) to the main toolshed. I used planemo to prepare my submission to the toolshed.
When I try to interact with the main toolshed entry via planemo, it tells me it doesn’t exist, but when I try to create a new toolshed entry, it tells me I own a tool with that name… (see code below)
Thanks for the help!
planemo shed_create --shed_target toolshed
Unexpected HTTP status code: 400: {"err_msg": "You already own a repository named <b>alevinqc<\/b>, please choose a different name.", "err_code": 400008}
planemo shed_diff --shed_target toolshed
shed_diff: Repository [alevinqc] does not exist in the targeted Tool Shed.
planemo shed_update --check_diff --shed_target toolshed
Repository [alevinqc] does not exist in the targeted Tool Shed.
Failed to update repository 'alevinqc' as it does not exist on the main Tool Shed.
I tried to run shed_upload inside the tool folder from my local machine and outside the folder specifying it. In both cases, it returned the following:
git rev-parse HEAD
galaxy.util.commands WARNING: Passing program arguments as a string may be a security hazard if combined with untrusted input
git diff --quiet
Repository [alevinqc] does not exist in the targeted Tool Shed.
Appears to be something weird going on inside the toolshed - when I following this link on the toolshed to your repository found with a name search: Galaxy |
I see a strange cascade of windows - never seen that. Looks like the toolshed is in a state of confusion about that tool
Thanks for confirming that this weird cascading effect is going on in the toolshed @fubar !
I think because the upload of the tool to toolshed failed, it’s stuck in this state of having the entry but not having actual metadata associated with it. I can see something for this package when I am logged in to my toolshed account…
Is there a way to delete the current alevinqc from the main toolshed and just restart the process? @bjoern.gruening or anyone else familiar with the toolshed?
git rev-parse HEAD
galaxy.util.commands WARNING: Passing program arguments as a string may be a security hazard if combined with untrusted input
git diff --quiet
Unexpected HTTP status code: 400: {"err_msg": "You already own a repository named <b>alevinqc<\/b>, please choose a different name.", "err_code": 400008}
Repository [alevinqc] does not exist in the targeted Tool Shed.
Does anyone else have any other suggestions? It seems like I am stuck at this point unfortunately, unable to publish the tool on the main toolshed right now…
One idea is to just resubmit the tool with a slightly different name to make it work?
For example alevinqc_galaxy?
The resubmitting with different repo name will most probably work. At this point I suspect the mercurial repository corresponding to your repo on the toolshed side is in a bad shape and needs some manual reset/fixing.
I was finally able to fix this issue, by logging into the toolshed and uploading a tarball directly on the defective repo page for alevinqc. Now the entry seems to be correct and installable via toolshed. Any confirmation of correct install from a second source would be appreciated! https://toolshed.g2.bx.psu.edu/view/fwuennemann/alevinqc/5f0da20666fa
