FragGeneScan Activity
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yuzhenye
Activity for FragGeneScan
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Yuzhen Ye committed [995a78] on Code
cleanup unused script
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FragGeneScan updated /README.txt
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remove post_process.pl
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release 1.32
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Jeffrey Barrick posted a comment on merge request #1
Will you be able to put out a new release? The Bioconda install is still broken on MacOSX and this prevents some people from using pipelines my lab develops.
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Will create a new release. thanks!
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Thanks for merging in these changes. Do you think you will create a new release with the fix incorporated? (I need that to update the Bioconda installs.) Let me know if I can help with that.
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Fixed clang compile and bad_alloc error; works on MacOSX
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Fixed clang compile and bad_alloc error; works on MacOSX
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Alex Root posted a comment on discussion General Discussion
Thank you, Wazim. I have access to a Linux hpc and will try it on that. Best, Alex Root On Tuesday, March 1, 2022, wazimismail wazimismail@users.sourceforge.net wrote: Hi Alex, I believe the program wasn't tested on MacOS. If you have access to a Linux system, it would be best to try running FragGeneScan on it. If not, could you try a different shell - bash or csh? The program wasn't tested on zsh either. I hope this helps. Best, Wazim M. segmentation fault on macos https://sourceforge.net/p/fraggenescan/discussion/general/thread/b870fc9005/?limit=25#6bfb...
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wazimismail posted a comment on discussion General Discussion
Hi Alex, I believe the program wasn't tested on MacOS. If you have access to a Linux system, it would be best to try running FragGeneScan on it. If not, could you try a different shell - bash or csh? The program wasn't tested on zsh either. I hope this helps. Best, Wazim M.
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Hello, I am getting a segmentation fault with my data and also the example data $FragGeneScan -s ./example/NC_000913-454.fna -o ./example/NC_000913-454-fgs -w 0 -t 454_10 no. of seqs: 23373 zsh: segmentation fault FragGeneScan -s ./example/NC_000913-454.fna -o ./example/NC_000913-454-fgs -w What would you recommend that I do? thank you
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Charles Cole posted a comment on discussion General Discussion
Hello, I read in the paper that it would be possible to train the model on your own data but I can't seem to find any documentation for this feature. I would like to train this model on nanopore data with various levels of error-correction. I'm using the Sanger 2% model right now but I would like to use a model with better accomadation of indels. Thank you for your time, Charles Cole
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s4251484 posted a comment on discussion General Discussion
Hi wazimismail I'm getting this error (segmentation fault) while running FragGeneScan on my Mac os, can you please advise me on this? MY-MacBook-Pro:example s4251484$ /Users/s4251484/Library/FragGeneScan/FragGeneScan -s NC_000913.fna -o NC_000913-fgs -w 1 -t complete -p 1 Using 1 threads. no. of seqs: 1 Segmentation fault: 11
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I believe all three of these compiler warnings can be ignored. Please let me know...
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ALEX CHASE posted a comment on discussion General Discussion
I am also having trouble installing this software. I am hoping to use it in combination...
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Hi, Thank you for your interest in our software. To install the software, please...
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jinxiangyang modified a comment on discussion General Discussion
Dear ,I am a student from Northwestern Polytechnical University of China。Now I have...
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Dear ,I am a student from Northwestern Polytechnical University of China。Now I have...
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Wazim Mohammed Ismail committed [2115a6]
Thread support added. Fixed memory leaks
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Wazim MohammedIsmail committed [33ce27]
Initial commit
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