Error message, trying to generate first plot in Circos

40 views
Skip to first unread message

Erik Burchard

unread,
Apr 21, 2021, 2:48:26 PMApr 21
to Circos
I'm getting the following error when I attempt to plot my assembly using Circos:

debuggroup summary 0.42s welcome to circos v0.69 6 Dec 2015 on Perl 5.022001
debuggroup summary 0.43s current working directory /home/erik/Desktop/circos-0.69-9/etc
debuggroup summary 0.43s command /usr/bin/circos [no flags]
debuggroup summary 0.43s guessing configuration file
debuggroup summary 0.43s found conf file /home/erik/Desktop/circos-0.69-9/etc/circos.conf
debuggroup summary 1.05s debug will appear for these features: output,summary
debuggroup summary 1.05s bitmap output image ./circos.png
debuggroup summary 1.05s SVG output image ./circos.svg
debuggroup summary 1.05s parsing karyotype and organizing ideograms
debuggroup summary 1.06s karyotype has 26 chromosomes of total size 31,788,928
debuggroup summary 1.08s applying global and local scaling
Use of uninitialized value $norm[0] in join or string at /usr/share/perl5/Circos/Unit.pm line 196, <F> line 26.
The 'from' parameter (undef) to Circos::Unit::unit_convert was an 'undef', which is not one of the allowed types: scalar
 at /usr/share/perl5/Circos/Unit.pm line 203, <F> line 26.
Circos::Unit::unit_convert("from", undef, "to", "b", "factors", HASH(0x4d58a30)) called at /usr/share/perl/5.22/Memoize.pm line 245
Memoize::_memoizer(CODE(0x43647e8), "from", undef, "to", "b", "factors", HASH(0x4d58a30)) called at (eval 84) line 1
Memoize::__ANON__("from", undef, "to", "b", "factors", HASH(0x4d58a30)) called at /usr/share/perl5/Circos.pm line 5578
Circos::ideogram_spacing(HASH(0x4d40370), HASH(0x4d404f0), 0) called at /usr/share/perl5/Circos.pm line 538
Circos::run("Circos", "_argv", "", "_cwd", "/home/erik/Desktop/circos-0.69-9/etc") called at /usr/bin/circos line 385

Can someone please tell me what is going wrong here?  Thanks very much!!

Erik
Reply all
Reply to author
Forward
0 new messages