Error with extracting when update to 2.15

Elad · July 9, 2020, 2:48pm

Hi,
when I try to update to v2.15.0 I get this error:

Extracting...
tar: cryosparc2_webapp/bundle/server/.bundle_version.txt: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/.node_version.txt: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/star.json: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/npm-shrinkwrap.json: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/program.json: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/boot.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/config.json: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/npm-rebuild-args.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/package.json: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/npm-rebuilds.json: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/app/app.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/app/app.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/app/global-imports.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/npm-rebuild.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/mini-files.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/server-json.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/npm-require.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/debug.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/boot-utils.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/assets/app/pages/terms.md: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/assets/app/pages/example-page.md: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/assets/app/pages/privacy.md: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/profile.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/allow-deny.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/webapp-hashing.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/es5-shim.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/meteor.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/socket-stream-client.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/reactive-var.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/mongo-id.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/accounts-base.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/dynamic-import.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/meteorhacks_picker.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/ddp-client.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/id-map.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/routepolicy.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/server-render.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/ddp-rate-limiter.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/minimongo.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/ddp-server.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/check.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/base64.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/ecmascript-runtime-client.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/mongo.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/shell-server.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/binary-heap.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/ordered-dict.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/sha.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/webapp.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/tracker.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/modules-runtime.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/rate-limit.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/allow-deny.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/shim-common.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/livedata.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/srp.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/webapp.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/mongo-id.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/hot-code-push.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/webapp-hashing.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/accounts-base.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/autoupdate.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/audit-argument-checks.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/ecmascript-runtime.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/react-meteor-data.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/ddp-common.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/geojson-utils.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/ordered-dict.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/shell-server.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/check.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/boilerplate-generator.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/diff-sequence.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/babel-compiler.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/minimongo.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/ecmascript.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/react-meteor-data.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/tmeasday_check-npm-versions.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/random.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/logging.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/npm-mongo.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/retry.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/standard-minifier-js.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/http.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/url.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/base64.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/natestrauser_publish-performant-counts.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/mobile-experience.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/meteor-base.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/accounts-password.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/underscore.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/accounts-password.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/alanning_roles.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/cosmos_browserify.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/deanius_promise.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/boilerplate-generator.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/email.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/callback-hook.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/random.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/ddp-common.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/autoupdate.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/mongo.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/ddp.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/rate-limit.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/socket-stream-client.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/ddp-client.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/modules.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/ddp-server.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/reload.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/service-configuration.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/fourseven_scss.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/ecmascript.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/launch-screen.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/adriancbo_chalk.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/ejson.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/callback-hook.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/npm-bcrypt.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/logging.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/retry.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/promise.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/routepolicy.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/static-html.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/tmeasday_check-npm-versions.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/diff-sequence.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/ecmascript-runtime-server.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/server-render.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/standard-minifier-css.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/shim-common.js.map: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/id-map.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/ejson.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/server/packages/babel-runtime.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/program.json: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/body.html: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/c72043af0477364082eadbb1eb8c4c2497c4b633.stats.json: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/woff2/Inter-UI-Black.woff2: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/woff2/Inter-UI-Medium.woff2: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/woff2/FiraCode-Light.woff2: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/woff2/Inter-UI-BlackItalic.woff2: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/woff2/Inter-UI-Regular.woff2: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/woff2/Inter-UI-Italic.woff2: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/woff2/FiraCode-Regular.woff2: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/woff2/Inter-UI-Bold.woff2: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/woff2/Inter-UI-BoldItalic.woff2: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/woff2/FiraCode-Medium.woff2: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/woff2/Inter-UI-MediumItalic.woff2: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/woff2/FiraCode-Bold.woff2: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/woff/Inter-UI-BoldItalic.woff: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/woff/Inter-UI-Black.woff: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/woff/Inter-UI-Italic.woff: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/woff/FiraCode-Medium.woff: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/woff/Inter-UI-Bold.woff: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/woff/Inter-UI-Regular.woff: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/woff/FiraCode-Bold.woff: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/woff/Inter-UI-MediumItalic.woff: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/woff/Inter-UI-Medium.woff: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/woff/FiraCode-Regular.woff: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/woff/FiraCode-Light.woff: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/woff/Inter-UI-BlackItalic.woff: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/ttf/FiraCode-Light.ttf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/ttf/Inter-UI-BoldItalic.ttf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/ttf/Inter-UI-BlackItalic.ttf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/ttf/FiraCode-Bold.ttf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/ttf/Inter-UI-Black.ttf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/ttf/FiraCode-Medium.ttf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/ttf/Inter-UI-Bold.ttf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/ttf/Inter-UI-MediumItalic.ttf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/ttf/Inter-UI-Medium.ttf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/ttf/Inter-UI-Italic.ttf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/ttf/Inter-UI-Regular.ttf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/ttf/FiraCode-Regular.ttf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/ttf/FiraCode-Retina.ttf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/otf/Inter-UI-BoldItalic.otf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/otf/Inter-UI-MediumItalic.otf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/otf/FiraCode-Light.otf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/otf/Inter-UI-Black.otf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/otf/Inter-UI-Medium.otf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/otf/Inter-UI-Bold.otf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/otf/Inter-UI-BlackItalic.otf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/otf/Inter-UI-Regular.otf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/otf/Inter-UI-Italic.otf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/otf/FiraCode-Bold.otf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/otf/FiraCode-Medium.otf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/otf/FiraCode-Regular.otf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/otf/FiraCode-Retina.otf: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/eot/FiraCode-Light.eot: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/eot/FiraCode-Medium.eot: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/eot/FiraCode-Bold.eot: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/fonts/eot/FiraCode-Regular.eot: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/favicon.png: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/app/dev-favicon.png: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/c72043af0477364082eadbb1eb8c4c2497c4b633.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/packages/es5-shim/es5-shim-sham.min.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/packages/es5-shim/es5-shim-sham.js: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/programs/web.browser/head.html: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/README: Cannot open: Permission denied
tar: cryosparc2_webapp/bundle/main.js: Cannot open: Permission denied
tar: Exiting with failure status due to previous errors

vamsee · July 9, 2020, 5:36pm

A couple of thoughts come to mind

Did you happen to install the first installation as a super user? Cryosparc doesn’t need to be installed with sudo.
Also, it seems like the errors show up only when trying to unzip the webapp. Do you still have your chrome/firefox window open by any chance? Maybe that’s causing the issue?

Elad · July 9, 2020, 6:08pm

No I did not install as sudo.
I have try to close the chrome window and get the same error.

Elad · July 9, 2020, 10:29pm

Ok so I try fresh install and the tar work without problems.
The master finish w/o any error and the worker have this error:

Requirement already satisfied: attrs>=17.2.0 in ./deps/anaconda/lib/python2.7/site-packages (from pytest>=2->pycuda==2019.1)
Collecting pluggy<0.7,>=0.5 (from pytest>=2->pycuda==2019.1)
  Could not fetch URL https://pypi.python.org/simple/pluggy/: There was a problem confirming the ssl certificate: [SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed (_ssl.c:726) - skipping
  Could not find a version that satisfies the requirement pluggy<0.7,>=0.5 (from pytest>=2->pycuda==2019.1) (from versions: )
No matching distribution found for pluggy<0.7,>=0.5 (from pytest>=2->pycuda==2019.1)

but the install finish.
The worker is successfully connect to the master but give this error:

 Autodetecting available GPUs...
Traceback (most recent call last):
  File "bin/connect.py", line 231, in <module>
    gpu_devidxs = check_gpus()
  File "bin/connect.py", line 105, in check_gpus
    num_devs = print_gpu_list()
  File "bin/connect.py", line 22, in print_gpu_list
    import pycuda.driver as cudrv
ImportError: No module named pycuda.driver

In the resources I can see the CPU/GPU

When I try to run patch CTF it failed with this error:

[CPU: 161.3 MB]  Traceback (most recent call last):
  File "cryosparc2_worker/cryosparc2_compute/run.py", line 85, in cryosparc2_compute.run.main
  File "cryosparc2_worker/cryosparc2_compute/jobs/ctf_estimation/run.py", line 258, in cryosparc2_compute.jobs.ctf_estimation.run.run
AssertionError: Child process with PID 42713 has terminated unexpectedly!

stephan · July 9, 2020, 11:19pm

Hi @Elad,

Can you do the following:

Navigate to cryosparc2_worker
Run eval $(./bin/cryosparcw env)
Run pip install deps_bundle/python/python_packages/pip_packages/*.tar.gz --no-binary :all: --trusted-host pypi.org --trusted-host pypi.python.org --trusted-host files.pythonhosted.org

This should fix the SSL error you received when trying to install the worker module. This is fixed in the next version of cryoSPARC.

Elad · July 10, 2020, 3:35pm

Thanks this solved the problem.