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bacpop / ggCaller

Bifrost graph gene caller.
MIT License
86 stars 6 forks source link

Error while following tutorial! Please help! #2

Closed Vladislav-Shevtsov closed 1 year ago

Vladislav-Shevtsov commented 1 year ago

I installed the application using conda. Then downloaded test data from the tutorial (https://github.com/samhorsfield96/ggCaller/blob/master/docs/tutorial.rst) and get the error message (Illegal instruction (core dumped)) after running the command: ggcaller --refs Bentley_et_al_2006_CPS_sequences/input.txt --annotation ultrasensitive --diamonddb Bentley_et_al_2006_CPS_protein_sequences.faa --aligner def --alignment pan --save --out ggc_Bentley_et_al_CPS --threads 4

Please advice how to solve it! Looking forward to your answer!

P.S. I have ensured that the input.txt file is generated and path to the file was set correctly.

samlipworth commented 1 year ago

See my previous issue -this is due to a conda dependency - did you try installing from source (I couldn't get this to work (on an ubuntu machine) either but will give it another go.

samhorsfield96 commented 1 year ago

If this doesn't work, I would suggest installing gcc via conda (https://anaconda.org/conda-forge/cxx-compiler) and retrying.

samlipworth commented 1 year ago

can confirm the above works for me

samhorsfield96 commented 1 year ago

@Vladislav-Shevtsov have you been able to install? If all is good I shall close the issue.