To do perform de novo assembly, I downloaded MaSuRCA assembler ver 3.3.3. I have executed the command ./install.sh, and got the following error.
> swig/perl5/swig_wrap.cpp:322:10: fatal error: string.h: No such file
> or directory
> #include <string.h>
>
> compilation terminated.
> Makefile: 1622: recipe for target 'swig/perl5/swig_perl5_jellyfish_la-swig_wrap.lo' failed
Full error log is shown in the following link: https://pastebin.com/Xr7D9jWd
According to this Q&A ( https://github.com/alekseyzimin/masurca/issues/10 ), I have upgraded my perl and swig, but still cannot install MaSuRCA successfully.
I'd be grateful if you could help me. Thanks.
My environment is as follows:
Ubuntu 18.04.3 LTS
Perl 5.26.2
gcc 7.4.0
jellyfish 2.2.10
swig 3.0.12
Even though some people might not agree with it, I personally like to simply pull tools from conda (https://anaconda.org/bioconda/masurca) to get my analysis going while not wasting time on compiling things myself.
I appreciate your nice suggestion! I could successfully install MaSuRCA thanks to Bioconda.
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Did you try to
find <MaSuRCA home> -name "string.h"in your maSuRCA home directory?string.h was not found in the MaSuRCA directly.
Is there a "configure" script in the directory? Or a readme that lists installation steps?