What version of Galaxy exactly is this? And, it looks like it's being run by planemo, and not a simple 'run.sh' via the command line -- is that correct?
On Tue, Jan 8, 2019 at 10:04 AM Matthias Bernt <
m.bernt@ufz.de> wrote:
Dear all,
a colleague tries to run.sh on a Manjaro Linux and got the following error:
```
yarn run v1.12.3
$ NODE_ENV=production gulp staging && concurrently "yarn run style"
"yarn run webpack-production-maps" "yarn run gulp clean && yarn run
gulp-production-maps" && yarn run save-build-hash
gulp[12888]: ../src/node_contextify.cc:628:static void
node::contextify::ContextifyScript::New(const
v8::FunctionCallbackInfo<v8::Value>&): Assertion `args[1]->IsString()'
failed.
1: 0x8daaa0 node::Abort() [gulp]
2: 0x8dab75 [gulp]
3: 0x90e2f7
node::contextify::ContextifyScript::New(v8::FunctionCallbackInfo<v8::Value>
const&) [gulp]
4: 0xb5e71b [gulp]
5: 0xb606b2 v8::internal::Builtin_HandleApiCall(int,
v8::internal::Object**, v8::internal::Isolate*) [gulp]
6: 0x6f20bcdbe1d
/tmp/yarn--1546955496175-0.8677740791371564/node: line 3: 12888
Aborted (core dumped)
"/home/henning/nextcloud/PhD/20190108-galaxy_workshop/galaxy/.venv/bin/node"
"$@"
error Command failed with exit code 134.
info Visit https://yarnpkg.com/en/docs/cli/run for documentation about
this command.
ERROR: Galaxy client build failed. See ./client/README.md for more
information, including how to get help.
Problem running Galaxy command [].
Traceback (most recent call last):
File
"/home/henning/nextcloud/PhD/20190108-galaxy_workshop/galaxy/env/bin/planemo",
line 11, in <module>
sys.exit(planemo())
File
"/home/henning/nextcloud/PhD/20190108-galaxy_workshop/galaxy/env/lib/python3.7/site-packages/click/core.py",
line 764, in __call__
return self.main(*args, **kwargs)
File
"/home/henning/nextcloud/PhD/20190108-galaxy_workshop/galaxy/env/lib/python3.7/site-packages/click/core.py",
line 717, in main
rv = self.invoke(ctx)
File
"/home/henning/nextcloud/PhD/20190108-galaxy_workshop/galaxy/env/lib/python3.7/site-packages/click/core.py",
line 1137, in invoke
return _process_result(sub_ctx.command.invoke(sub_ctx))
File
"/home/henning/nextcloud/PhD/20190108-galaxy_workshop/galaxy/env/lib/python3.7/site-packages/click/core.py",
line 956, in invoke
return ctx.invoke(self.callback, **ctx.params)
File
"/home/henning/nextcloud/PhD/20190108-galaxy_workshop/galaxy/env/lib/python3.7/site-packages/click/core.py",
line 555, in invoke
return callback(*args, **kwargs)
File
"/home/henning/nextcloud/PhD/20190108-galaxy_workshop/galaxy/env/lib/python3.7/site-packages/click/decorators.py",
line 64, in new_func
return ctx.invoke(f, obj, *args, **kwargs)
File
"/home/henning/nextcloud/PhD/20190108-galaxy_workshop/galaxy/env/lib/python3.7/site-packages/click/core.py",
line 555, in invoke
return callback(*args, **kwargs)
File
"/home/henning/nextcloud/PhD/20190108-galaxy_workshop/galaxy/env/lib/python3.7/site-packages/planemo/cli.py",
line 195, in handle_blended_options
return f(*args, **kwds)
File
"/home/henning/nextcloud/PhD/20190108-galaxy_workshop/galaxy/env/lib/python3.7/site-packages/planemo/commands/cmd_serve.py",
line 43, in cli
galaxy_serve(ctx, runnables, **kwds)
File
"/home/henning/nextcloud/PhD/20190108-galaxy_workshop/galaxy/env/lib/python3.7/site-packages/planemo/galaxy/serve.py",
line 22, in serve
return _serve(ctx, runnables, **kwds)
File
"/home/henning/nextcloud/PhD/20190108-galaxy_workshop/galaxy/env/lib/python3.7/site-packages/planemo/galaxy/serve.py",
line 54, in _serve
raise Exception(message)
Exception: Problem running Galaxy command [].
```
Would be great to have a suggestion...
Cheers,
Matthias
--
-------------------------------------------
Matthias Bernt
Bioinformatics Service
Molekulare Systembiologie (MOLSYB)
Helmholtz-Zentrum für Umweltforschung GmbH - UFZ/
Helmholtz Centre for Environmental Research GmbH - UFZ
Permoserstraße 15, 04318 Leipzig, Germany
Phone +49 341 235 482296,
m.bernt@ufz.de, www.ufz.de
Sitz der Gesellschaft/Registered Office: Leipzig
Registergericht/Registration Office: Amtsgericht Leipzig
Handelsregister Nr./Trade Register Nr.: B 4703
Vorsitzender des Aufsichtsrats/Chairman of the Supervisory Board:
MinDirig Wilfried Kraus
Wissenschaftlicher Geschäftsführer/Scientific Managing Director:
Prof. Dr. Dr. h.c. Georg Teutsch
-------------------------------------------
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