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aquaskyline / SOAPdenovo2

Next generation sequencing reads de novo assembler.
GNU General Public License v3.0
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SOAPdenovo-fusion (command not found...) #49

Closed ptsij closed 6 years ago

ptsij commented 6 years ago

Hi, I'm trying to use 'SOAPdenovo-fusion'. Then I compile it using make on SOAPdenovo2-r241. Other tools are working good: SOAPdenovo-63mer & SOAPdenovo-127mer But, I couldn't use 'SOAPdenovo-fusion' and only got,

'bash: SOAPdenovo-fusion: command not found...' message.

I got the same error message after compiling with 'make debug=1'. Can you please help me to solve this out?

ptsij commented 6 years ago

I just gave PATH to the all 3 packages and then, it worked ! SOAPdenovo-63mer and 127mer was executable since I installed them through bioconda but it was 2.40 version which doesn't hae -fusion. Sorry for this, and I will just close this issue.

franciscozorrilla commented 5 years ago

would be nice to have the fusion module/command in the bioconda recipe :)

Robvh-git commented 4 years ago

I experienced the same issue. Indeed, setting PATH to the folder which contains all the 3 commands, fixes the problem.

alephreish commented 2 years ago

Please add SOAPdenovo-fusion to the conda recipe.