Thanks for the information. I've seen this error before, but only when using an external (and incompatible) nodejs. It looks like, in your case, it's correctly using .venv/bin/node that Galaxy will have installed. Can you check the version of that for me with ` /home/henning/nextcloud/PhD/20190108-galaxy_workshop/galaxy/.venv/bin/node --version`? And is there another node/yarn available on the system? It might also be useful information to see what happens when you try the client build directly, both within the .venv and without, so, from the Galaxy directory try a `make client`. Save the output of that, and then `source .venv/bin/activate`, and `make client` again. -Dannon On Tue, Jan 8, 2019 at 11:15 AM Matthias Bernt <m.bernt@ufz.de> wrote:
Hi Dannon,
We are trying to run release_18.09.
Indeed the output was from planemo, but we get the same (yarn) error when ./run.sh is called without planemo:
``` $ 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[14831]: ../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: 0x2ce8440dbe1d /tmp/yarn--1546961268610-0.24122682361732672/node: line 3: 14831 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. ```
Best, Matthias
On 08.01.19 16:09, Dannon Baker wrote:
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 <mailto: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
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------------------------------------------- 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 <mailto:m.bernt@ufz.de>, www.ufz.de <
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------------------------------------------- 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 -------------------------------------------