Hello all
I have downloaded and installed RepeatMasker in my computer. When running the perl ./configure, all went fine, but at the end, after setting the searching engine (rmblastn), this is what I got:
-- Setting perl interpreter...
Can't remove RepeatMasker: permission denied, skipping file.
Can't remove DateRepeats: Permiso denegado, skipping file.
Can't remove ProcessRepeats: Permiso denegado, skipping file.
Can't remove RepeatProteinMask: Permiso denegado, skipping file.
Can't remove DupMasker: Permiso denegado, skipping file.
Can't remove util/queryRepeatDatabase.pl: Permiso denegado, skipping file.
Can't remove util/queryTaxonomyDatabase.pl: Permiso denegado, skipping file.
Can't remove util/rmOutToGFF3.pl: Permiso denegado, skipping file.
Can't remove util/rmToUCSCTables.pl: Permiso denegado, skipping file.
However, the program seems to have been succesfully installed:
Congratulations! RepeatMasker is now ready to use.
The program is installed with a full version of the repeat library:
DFAM Library Version = Dfam_1.2
RMLibrary Version = 20140131
Repbase Version = 20140131
Further documentation on the program may be found here:
/home/RepeatMasker/repeatmasker.help
So according to this, the program is installed and ready to use. I do have a fasta file of contigs (low coverage genomic data) on which I do want to run RepeatMasker. The file is located in the RepeatMasker folder (which I think is mandatory?), however, when I try to run the program as follows:
RepeatMasker Mnais-SSPACE-scaffolds.k49.ncbi.fa
I get the following error: RepeatMasker: order not found
Any idea on what is going on, and how I can solve this problem would be more than welcome
Thanks a lot in advance
Olalla
I have downloaded and installed RepeatMasker in my computer. When running the perl ./configure, all went fine, but at the end, after setting the searching engine (rmblastn), this is what I got:
-- Setting perl interpreter...
Can't remove RepeatMasker: permission denied, skipping file.
Can't remove DateRepeats: Permiso denegado, skipping file.
Can't remove ProcessRepeats: Permiso denegado, skipping file.
Can't remove RepeatProteinMask: Permiso denegado, skipping file.
Can't remove DupMasker: Permiso denegado, skipping file.
Can't remove util/queryRepeatDatabase.pl: Permiso denegado, skipping file.
Can't remove util/queryTaxonomyDatabase.pl: Permiso denegado, skipping file.
Can't remove util/rmOutToGFF3.pl: Permiso denegado, skipping file.
Can't remove util/rmToUCSCTables.pl: Permiso denegado, skipping file.
However, the program seems to have been succesfully installed:
Congratulations! RepeatMasker is now ready to use.
The program is installed with a full version of the repeat library:
DFAM Library Version = Dfam_1.2
RMLibrary Version = 20140131
Repbase Version = 20140131
Further documentation on the program may be found here:
/home/RepeatMasker/repeatmasker.help
So according to this, the program is installed and ready to use. I do have a fasta file of contigs (low coverage genomic data) on which I do want to run RepeatMasker. The file is located in the RepeatMasker folder (which I think is mandatory?), however, when I try to run the program as follows:
RepeatMasker Mnais-SSPACE-scaffolds.k49.ncbi.fa
I get the following error: RepeatMasker: order not found
Any idea on what is going on, and how I can solve this problem would be more than welcome
Thanks a lot in advance
Olalla
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