Hi CJ-Chen, Thanks for developing this tool.
I having an issue when I try to use Quick Run MCScanX Wrapper.
error log here:
[Debug…All Standard Error Info will show as following:…]
Curr log file:/tmp/TBtools.14595798488989250861.20210723103734.log
Curr java version:11.0.11
Curr TBtools version:1.09854
Maxmum Memory for Curr TBtools: 4162846720
curVersion:1.09854:force
Fetch Location:200
Factor:0.1516546094367225
sh: 1: MCScanX: not found
sh: 1: duplicate_gene_classifier: not found
Exception in thread “Thread-5” java.lang.ArrayIndexOutOfBoundsException: Index 1 out of bounds for length 1Show me that TBtools can’t find MCScanX and duplicate_gen_classifier, but already installed and added to my path how could fix this issue?
Thanks.
I solve the issue “sh: 1: MCScanX: not found” “sh: 1: duplicate_gene_classifier: not found” making a soft link
sudo ln -s /”full path to the binaries” /usr/bin. But I still have something weir at the end of the log
Debug…All Standard Error Info will show as following:…]
Curr log file:/tmp/TBtools.5396513406862413497.20210723140923.log
Curr java version:11.0.11
Curr TBtools version:1.09854
Maxmum Memory for Curr TBtools: 4162846720
curVersion:1.09854:force
Fetch Location:200
Factor:0.4252665337415543
Reading BLAST file and pre-processing
Generating BLAST list
0 matches imported (69 discarded)
0 pairwise comparisons
0 alignments generated
Pairwise collinear blocks written to ./psal.blast.collinearity [0.014 seconds elapsed]
Writing multiple syntenic blocks to HTML files
NZ_CP011849.2.html
NZ_CP011850.1.html
NZ_CP011851.1.html
NZ_CP011852.1.html
NZ_CP013669.1.html
Done! [0.009 seconds elapsed]
Reading BLAST file and pre-processing
Generating BLAST list
0 matches imported (69 discarded)
0 pairwise comparisons
0 alignments generated
Type of dup Code Number
Singleton 0 3574
Dispersed 1 0
Proximal 2 0
Tandem 3 0
WGD or segmental 4 0
Exception in thread “Thread-5” java.lang.ArrayIndexOutOfBoundsException: Index 1 out of bounds for length 1
Do you know to what is referring?
Thanks.
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