Failed to run maker after install

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Failed to run maker after install

Abdulmalek Algarni
Hi there,

I having a problem when running maker after installing it following the installation instructions. All the excutables located at …/maker/bin works show no error, except for the maker it show an error :

Abdulmaleks-Mac-Pro:bin abdulmalek$ ./maker -h
Couldn't find an appropriate DIRECTORY for Inline to use.

 at /Library/Perl/5.18/Bio/DB/IndexedBase.pm line 251.
BEGIN failed--compilation aborted at /Library/Perl/5.18/Bio/DB/IndexedBase.pm line 282.
Compilation failed in require at (eval 27) line 2.
...propagated at /System/Library/Perl/5.18/base.pm line 84.
BEGIN failed--compilation aborted at /Library/Perl/5.18/Bio/DB/Fasta.pm line 137.
Compilation failed in require at ./maker line 62.
BEGIN failed--compilation aborted at ./maker line 62.


For the other excutables here is an example :
Abdulmaleks-Mac-Pro:bin abdulmalek$ ./cegma2zff 

Usage:
     cegma2zff <cegma_gff> <genome_fasta>

     This script converts the output GFF file from CEGMA into ZFF format
     for use in SNAP training.  Output files are always genome.ann and
     genome.dna.



Best regards,

Abdulmalek

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Re: Failed to run maker after install

Carson Holt-2
Install live version of BioPerl, then reinsall MAKER against that —> https://github.com/bioperl/bioperl-live

There is a BioPerl related issue with Inline::C that has been fixed.

—Carson



On May 22, 2019, at 5:51 AM, Abdulmalek Algarni <[hidden email]> wrote:

Hi there,

I having a problem when running maker after installing it following the installation instructions. All the excutables located at …/maker/bin works show no error, except for the maker it show an error :

Abdulmaleks-Mac-Pro:bin abdulmalek$ ./maker -h
Couldn't find an appropriate DIRECTORY for Inline to use.

 at /Library/Perl/5.18/Bio/DB/IndexedBase.pm line 251.
BEGIN failed--compilation aborted at /Library/Perl/5.18/Bio/DB/IndexedBase.pm line 282.
Compilation failed in require at (eval 27) line 2.
...propagated at /System/Library/Perl/5.18/base.pm line 84.
BEGIN failed--compilation aborted at /Library/Perl/5.18/Bio/DB/Fasta.pm line 137.
Compilation failed in require at ./maker line 62.
BEGIN failed--compilation aborted at ./maker line 62.


For the other excutables here is an example :
Abdulmaleks-Mac-Pro:bin abdulmalek$ ./cegma2zff 

Usage:
     cegma2zff <cegma_gff> <genome_fasta>

     This script converts the output GFF file from CEGMA into ZFF format
     for use in SNAP training.  Output files are always genome.ann and
     genome.dna.



Best regards,

Abdulmalek
_______________________________________________
maker-devel mailing list
[hidden email]
http://box290.bluehost.com/mailman/listinfo/maker-devel_yandell-lab.org


_______________________________________________
maker-devel mailing list
[hidden email]
http://box290.bluehost.com/mailman/listinfo/maker-devel_yandell-lab.org