search

happykhan / BRIG

BRIG is a cross-platform (Windows/Mac/Unix) application that can display circular comparisons between a large number of genomes, with a focus on handling genome assembly data.
http://sourceforge.net/projects/brig/
GNU General Public License v3.0
26 stars 6 forks source link

BRIG keeps on showing not enough space although I changed the drive I was previously working on. The image rendered is incomplete, cant see the colored rings outside #18

Open zararafaque opened 3 years ago

zararafaque commented 3 years ago

Running BLAST... Sequence length: 5246185 makeblastdb -dbtype nucl -in D:\scratch\Spaced0NA_114.fna Error: mdb_env_open: There is not enough space on the disk.

11890_UEC11.fastaVsS... exists, skipping .. makeblastdb -dbtype nucl -in D:\scratch\Spaced0NA_114.fna Error: mdb_env_open: There is not enough space on the disk.

blastn -outfmt 6 -query E:\NGS\contigs\20171031_Andrews1\contigs\11891_UEC31.fasta -db D:\scratch\Spaced0NA_114.fna -out D:\scratch\11891_UEC31.fastaVsSpaced0NA_114.fna.tab -task blastn BLAST Database error: No alias or index file found for nucleotide database [D:\scratch\Spaced0NA_114.fna] in search path [C:\Users\Zara Rafaque\Downloads\BRIG-0.95-dist\BRIG-0.95-dist;;]

Parsing BLAST Results...

Rendering CGVIEW image... java -Xmx1500m -jar cgview\cgview.jar -f jpg -i D:\scratch\NA_114.fna.xml -o D:\NA_114.fna.jpg Parsing XML input. Drawing features.... Positioning and drawing 0 labels.......................... 0 labels were removed. Drawing tick marks. Drawing legends. The map has been drawn. Writing picture to D:\NA_114.fna.jpg Done.

leosanbu commented 3 years ago

Same problem here, I imagine it is because i'm trying to run it with 30 genomes. I tried to run it with "java -Xmx2000m jar BRIG.jar" in case it is a memory issue but seems to use "java -Xmx1500m" anyway at the CGVIEW rendering stage. Did you get to know the problem? Thanks!