CIRCOS fatal error

usegalaxy.org support
,
#1

I am using Circos visualizes data in a circular layout (Galaxy Version 0.69.8+galaxy4) and it is giving fatal error since the 15th, after your maintenance.

I am using usegalaxy.org

Use of uninitialized value in subroutine entry at /cvmfs/main.galaxyproject.org/deps/_conda/envs/mulled-v1-dd38f3b35796eaa94d0b5d1d9c1428ec987dcd7f39e81a08df8df138203a8004/bin/…/lib/Circos/Configuration.pm line 781.
Can’t call method “colorExact” on an undefined value at /cvmfs/main.galaxyproject.org/deps/_conda/envs/mulled-v1-dd38f3b35796eaa94d0b5d1d9c1428ec987dcd7f39e81a08df8df138203a8004/bin/…/lib/Circos/Colors.pm line 348, line 6.

1 Like
#2

Hi @jaiswalp, I’m one of the tool authors.

The earlier versions of the wrapper had some significant bugs in the color functions, those should all be fixed in the newer version. Please try 0.69.8+galaxy7 if it is available on .org.

It should be available on UseGalaxy.eu.

1 Like
#3

Thanks @hxr! Agree – use the upgraded tools at usegalaxy.eu for at least the near-term.

@jaiswalp Upgrading the tool at usegalaxy.org will likely occur soon, but not immediately. Tracking ticket here https://github.com/galaxyproject/usegalaxy-playbook/issues/313. You and anyone else can follow it for updates.

Best

#4

Thank you.
Pankaj

1 Like
#5

Hello @hxr , I got quite a similar error like this topic when I followed the tutorial Visualisation with Circos (galaxyproject.org). The Circos version installed on our institution Galaxy is 0.69.8+galaxy7.

 Can't call method "colorExact" on an undefined value at /services/galaxy/galaxy_share/tool_deps/_conda/envs/mulled-v1-3cf5c7d734898be0f8d76d0fbf3face5f99ca4b3a9b294235f9271dd27115368/bin/../lib/Circos/Colors.pm line 348, <F> line 886.

Any ideas to fix it?

Many thanks
Thanh