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Thread | Thread Starter | Forum | Replies | Last Post |
MaSuRCA error | bsp017 | Illumina/Solexa | 18 | 05-15-2016 10:23 PM |
Masurca error - assembler deleted prior to being run | AeonJeffJ | Bioinformatics | 1 | 08-12-2014 04:37 PM |
MaSuRCA install error | Volklor | Bioinformatics | 6 | 01-22-2014 06:10 AM |
MaSurCa Assembler Coverage. | J.David | General | 0 | 01-21-2014 09:57 AM |
Celera Assembler runCA failed | DNAjunk | Bioinformatics | 2 | 09-08-2009 03:52 AM |
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#1 |
Junior Member
Location: Karachi, Pakistan Join Date: Dec 2016
Posts: 3
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Successfuly install MaSuRCA
HTML Code:
tar xfz MaSuRCA-3.2.1.tar.gz HTML Code:
cd MaSuRCA-3.2.1 HTML Code:
sudo ./install.sh Code:
MaSuRCA-3.2.1/bin/masurca MaSuRCA-3.2.1/bin/config.txt Verifying PATHS... jellyfish OK Error: runCA not found or failed to run |
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#2 |
Senior Member
Location: Berlin, DE Join Date: May 2008
Posts: 620
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Please do not crosspost to Biostars if you want help here ..
jellyfish is in your PATH, runCA is not. You could either use --path /PATH/TO/runCA with masurca or add the corresponding path to your PATH variable. There is a bin folder in masurca installation directory which holds the common binaries. runCA and other programs are in one of the "neighbor" folders, in CA/bin or CA8/bin. best, Sven |
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#3 |
Junior Member
Location: Karachi, Pakistan Join Date: Dec 2016
Posts: 3
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Thank you Sven, its work
PATH=~/tools/MaSuRCA-3.2.1_12062016/CA/Linux-i686/bin:$PATH PATH=$PATH:~/tools/MaSuRCA-3.2.1_12062016/CA/Linux-i686/bin sudo env "PATH=$PATH" ~/tools/MaSuRCA-3.2.1_12062016/bin/masurca ~/tools/MaSuRCA-3.2.1_12062016/bin/config.txt |
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#4 |
Junior Member
Location: china Join Date: Dec 2011
Posts: 9
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I also have a runCA issue, I installed MaSuRCA-3.2.1_01202017 successfully. I use CA8/bin in my PATH. During Assembly, MsSuRCA threw a runCA error:
"ERROR: the runCA option ovlHashBlockSize is not recognized. This runCA functionality changed in CABOG version 7. Try using ovlHashBlockLength instead." I found masurca generated "assemble.sh" based on runCA6 command, but installed runCA version is 8.2. So how to fix this issue ? best, mjx |
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