Unknown error preventing tigmint-make across multiple installation methods

bcgsc / tigmint

⛓ Correct misassemblies using linked AND long reads

https://bcgsc.github.io/tigmint/

GNU General Public License v3.0

54 stars 13 forks source link

Unknown error preventing tigmint-make across multiple installation methods #24

Closed DrPintoThe2nd closed 5 years ago

DrPintoThe2nd commented 5 years ago

Hi all, Thanks for all your work developing this tool, it looks extremely useful! I'd really love to get this tool up and running on my workstation. However, I receive this error no matter which installation method I try, which genome version, etc...

./bin/tigmint-make tigmint draft=draft.fasta reads=barcoded.fastq.gz "make: *** No rule to make target 'draft.fasta.barcoded.fastq.gz.as0.65.nm5.molecule.size2000.trim0.window1000.span20.breaktigs.fa', needed by 'tigmint'. Stop."

Specs: Ubuntu 16.04, Intel Xeon 48 threads, 128 Gb RAM, 8Gb Graphics card.. and a cool mouse?.. Any guidance would be greatly appreciated! Best, bjp

lcoombe commented 5 years ago

Hi @DrPintoThe2nd ,

I'm guessing that since you closed this, you've figured it out, but I'll post the answer here anyway in case it helps another user.

You just will need to omit the suffixes from the specified draft and reads. Ie, with this command:

tigmint-make tigmint draft=draft reads=barcoded

tigmint expects to see an assembly called draft.fa and reads called barcoded.fq.gz in the current working directory.

DrPintoThe2nd commented 5 years ago

HA! Yes that was it! Of course I couldn't have figured it out a few hours earlier!

Thanks for all your work on this! Really excited for this tool! Best, bjp