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mjsull / Easyfig

Development version of Easyfig
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Cannot generate BLAST files - mac #17

Open liyanarox opened 5 years ago

liyanarox commented 5 years ago

Hi,

I'm trying to generate Blast files using EasyFig (2.2.2) but I am unable to do so. I've restarted EasyFig, downloaded Blast manually but EasyFig still cannot locate the Blast location and perform Blast. I wonder if it is possible to perform Blast online and download the output files to use this as the Blast files?

Best, Liyana

mjsull commented 5 years ago

Hi,

I created the following script.

https://raw.githubusercontent.com/mjsull/Easyfig/master/debug_blast_dl.py

If you could download it and then run "python path/to/debug_blast_dl.py" in the terminal and let me know what it prints out that would be very helpful.

JV1991 commented 5 years ago

Hi, I'm trying to generate the blast file from two phage whole genomes and when I run the blastn the output files are 1.easyfig.fa and 2.easyfig.fa in the folder and there is no xxxx.blastn.out file (as your example), actually generate a 12.easyfig.out file which is not recognized by the same software when I try to create the figure. However, when I run the same .gbk files with an empty .blastn.out file I can create the figure but without the matches and lines plot.

mjsull commented 5 years ago

Hi,

12.easyfig.out is the correct file. It should automatically add it to the BLAST files. Then when you click create figure the proper image should be made. Do you mind uploading the 12.easyfig.out file?

JV1991 commented 5 years ago

Hi, the thing is when I run the blast the 1.easyfig.fa and 2.easyfig.fa appear in the folder as output files but no the easyfig.out from the blast, that one stays in the software and when I try to create the figure the software says that it doesn't exist that file. So, I can't generate the .blastn.out file like to create the figure uploading the output file. screenshot1 screenshot2