Hello, I am trying to run HOME-timeseries on a HPC but get the following error. I am n

Hi, Please cd into HOME (not s) and try again. So it should sh

I did that and did one more thing. I copied the s folder into 'homeenv/lib/pytho

HOME-timeseries Exception about home HOT 4 CLOSED

listerlab commented on July 17, 2024

HOME-timeseries Exception

from home.

Comments (4)

Akanksha2511 commented on July 17, 2024

Hi, sorry about the issue. Have you tried to run it on the provided test case data?

Thanks,
Akanksha

from home.

arunkumarramesh commented on July 17, 2024

Hello,

Sorry I didn't include the full error message before. Here it is.

(homeenv) [a.ramesh@node06 scripts]$ Preparing the DMRs from HOME.....
GOOD LUCK !
Fatal error: cannot open file './scripts/HOME_R_time.R': No such file or directory
Traceback (most recent call last):
  File "/data/proj2/popgen/a.ramesh/software/HOME/scripts/HOME-timeseries", line 480, in <module>
    main(dx)
  File "/data/proj2/popgen/a.ramesh/software/HOME/scripts/HOME-timeseries", line 263, in main
    raise Exception(e.message)
Exception: 'DataFrame' object has no attribute 'p_value'

So it has something to do with the installation I think as it is unable to find the HOME_R_time.R file. That file does exist within the scripts folder but the '.' pointer does not seem sufficient to find it. I get the same error when I use the test data. It could also be because I am running it as

python HOME-timeseries

If i just try

HOME-timeseries

after activating the virtualenv, I get the following error

(homeenv) [a.ramesh@node06 scripts]$ HOME-timeseries -h
Traceback (most recent call last):
  File "/data/proj2/popgen/a.ramesh/software/homeenv/bin/HOME-timeseries", line 4, in <module>
    __import__('pkg_resources').run_script('HOME==1.0.0', 'HOME-timeseries')
  File "/data/proj2/popgen/a.ramesh/software/homeenv/lib/python2.7/site-packages/pkg_resources/__init__.py", line 666, in run_script
    self.require(requires)[0].run_script(script_name, ns)
  File "/data/proj2/popgen/a.ramesh/software/homeenv/lib/python2.7/site-packages/pkg_resources/__init__.py", line 1453, in run_script
    .format(**locals()),
pkg_resources.ResolutionError: Script 'scripts/HOME-timeseries' not found in metadata at '/data/proj2/popgen/a.ramesh/software/homeenv/lib/python2.7/site-packages/HOME-1.0.0.dist-info'

from home.

Akanksha2511 commented on July 17, 2024

Hi,

Please cd into HOME (not scripts) and try again. So it should show (homeenv) [a.ramesh@node06 HOME]$ HOME-timeseries -h

Thanks,
Akanksha

from home.

arunkumarramesh commented on July 17, 2024

I did that and did one more thing. I copied the scripts folder into 'homeenv/lib/python2.7/site-packages/HOME-1.0.0.dist-info'. 'homeenv' was my virtualenv but my HOME installation was outside of it. Together, it got rid of that error and the program is now running and producing results. Thanks so much

from home.

HOME-timeseries Exception about home HOT 4 CLOSED

Comments (4)

Related Issues (20)

Recommend Projects

React

Vue.js

Typescript

TensorFlow

Django

Laravel

D3

Recommend Topics

javascript

web

server

Machine learning

Visualization

Game

Recommend Org

Facebook

Microsoft

Google

Alibaba

D3

Tencent