missing sm.yml

[frulo]

Hello,

after the SM_distributed installation is know working well, I'm now trying to use this more comfortable installation.

on the step ansible-playbook sm.yml I get this error ERROR! the playbook: sm.yml could not be found.

kind regards,

Orlando

[intsco]

Hello Orlando,

Thank you for the feedback. The command was misspelled. Correct one is ansible-playbook provision.yml

Best, Vitaly

[frulo]

Hello Vitaly,

now I get the following error:

` TASK [sm_spark_master : Install SM into conda environment] ***** changed: [sm-vbox]

TASK [sm_spark_master : Put activate_conda_env.sh scripts to] ** fatal: [sm-vbox]: FAILED! => {"changed": false, "failed": true, "msg": "AnsibleUndefinedVariable: 'aws_access_key_id' is undefined"}

NO MORE HOSTS LEFT ***** to retry, use: --limit @provision.retry

PLAY RECAP ***** sm-vbox : ok=76 changed=49 unreachable=0 failed=1
`

and if I run the tests (scripts/run.sh test_runner.py -u -r) I get the following error: ____________________________________________________________________________ ERROR collecting sm/engine/tests/test_formulas.py _____________________________________________________________________________ sm/engine/tests/test_formulas.py:7: in <module> from sm.engine.tests.util import ds_config sm/engine/tests/util.py:4: in <module> from pyspark import SparkContext, SparkConf E ImportError: No module named pyspark

Best, Orlando

[intsco]

Hello Orlando,

As a workaround try to put random values for parameters in group_vars/all.yml aws_access_key_id, aws_secret_access_key.

I'm sorry but I have no access to a laptop for fixing bugs till 27th June.

Thanks

Best, Vitaly

[frulo]

Thank you, it works...

[frulo]

To be able to run the test Dataset I have to increase the memory of the virtual machine to 8192Mb. Maybe it would be helpful to also increase it on the vagrant file.

Best

Orlando

[intsco]

Hi Orlando,

On my machine I used virtual machines with 4096Mb of memory and it worked. Can you recall the issues that you had with 4Gb memory only?

Best, Vitaly

[frulo]

With only 4GB memory I could not run the molecule annotation job... With 8GB it works...

[intsco]

Hi Orlando,

https://github.com/SpatialMetabolomics/sm-engine-ansible/commit/664ae20607d21c99a833b387280432e24eb9270a should solve it without increasing VM's memory.

Regards, Vitaly

[frulo]

Hi with this commit I get no errors in the molecule annotation job. But I also can't see any results in the web app (List is empty). Only if I increase the Memory to 8GB I can see the results after running the molecule annotation job in the web app.