MUMmer dot plot error

Question: MUMmer dot plot error

3.7 years ago by

Switzerland

k.mamoud • 30 wrote:

Dear all,

I have installed into my local Galaxy the tool Mummer dot plot, I have an error that I can't understand for the option mummer search algorithm when I am using mummer i have this error :

Fatal error: Exit code 1 ()
# reading input file "/home/galaxy/Galaxy_data_repository/files/001/dataset_1509.dat" of length 2403545
# construct suffix tree for sequence of length 2403545
# (maximum reference length is 536870908)
# (maximum query length is 4294967295)
# process 24035 characters per dot
#....................................................................................................
# CONSTRUCTIONTIME mummer /home/galaxy/Galaxy_data_repository/files/001/dataset_1509.dat 0.57
# reading input file "/home/galaxy/Galaxy_data_repository/files/000/dataset_368.dat" of length 2403545
# matching query-file "/home/galaxy/Galaxy_data_repository/files/000/dataset_368.dat"
# against subject-file "/home/galaxy/Galaxy_data_repository/files/001/dataset_1509.dat"
# COMPLETETIME mummer /home/galaxy/Galaxy_data_repository/files/001/dataset_1509.dat 1.64
# SPACE mummer /home/galaxy/Galaxy_data_repository/files/001/dataset_1509.dat 4.66
defined(%hash) is deprecated at /home/galaxy/galaxy-dist/Tool_dependency/mummer/3.23/iuc/package_mummer_3_23/cc6c4d6ebceb/mummerplot line 884.
	(Maybe you should just omit the defined()?)
defined(%hash) is deprecated at /home/galaxy/galaxy-dist/Tool_dependency/mummer/3.23/iuc/package_mummer_3_23/cc6c4d6ebceb/mummerplot line 894.
	(Maybe you should just omit the defined()?)
defined(%hash) is deprecated at /home/galaxy/galaxy-dist/Tool_dependency/mummer/3.23/iuc/package_mummer_3_23/cc6c4d6ebceb/mummerplot line 981.
	(Maybe you should just omit the defined()?)
defined(%hash) is deprecated at /home/galaxy/galaxy-dist/Tool_dependency/mummer/3.23/iuc/package_mummer_3_23/cc6c4d6ebceb/mummerplot line 991.
	(Maybe you should just omit the defined()?)
defined(%hash) is deprecated at /home/galaxy/galaxy-dist/Tool_dependency/mummer/3.23/iuc/package_mummer_3_23/cc6c4d6ebceb/mummerplot line 1034.
	(Maybe you should just omit the defined()?)
defined(%hash) is deprecated at /home/galaxy/galaxy-dist/Tool_dependency/mummer/3.23/iuc/package_mummer_3_23/cc6c4d6ebceb/mummerplot line 1044.
	(Maybe you should just omit the defined()?)
Reading mummer file /home/galaxy/galaxy-dist/database/tmp/tmpkA2dMi/ref_qry.mums (use mummer -c)
Writing plot files /home/galaxy/galaxy-dist/database/tmp/tmpkA2dMi/ref_qry.fplot, /home/galaxy/galaxy-dist/database/tmp/tmpkA2dMi/ref_qry.rplot
ERROR: No alignment data to plot
Error 6400 from: mummerplot -R "/home/galaxy/Galaxy_data_repository/files/001/dataset_1509.dat" -Q "/home/galaxy/Galaxy_data_repository/files/000/dataset_368.dat" --png --large --prefix=/home/galaxy/galaxy-dist/database/tmp/tmpkA2dMi/ref_qry /home/galaxy/galaxy-dist/database/tmp/tmpkA2dMi/ref_qry.mums

And when i am trying Nucmer it is working.

Any idea,

thanks a lot in advance,

error tool galaxy inputs • 1.5k views

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modified 3.7 years ago by Jennifer Hillman Jackson ♦ 25k • written 3.7 years ago by k.mamoud • 30

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