dual_synteny_plotter error in MCScanx toolkit.

Question

[annapragada.harika]

Hello,

When I'm trying to run dual_synteny plotter in MCScanX toolkit, the following error is occurring

Reading gff error: For input string: ""
Exception in thread "main" java.lang.NullPointerException
        at dual_synteny_plotter.paint(dual_synteny_plotter.java:148)
        at dual_synteny_plotter.main(dual_synteny_plotter.java:265)

Can someone help me with this issue? Thanks in advance

[Joe]

Please only use the "Tool" category when posting the publication/advertisement of a new tool itself. It is not for questions about programs. I have changed it for you this time.

[annapragada.harika]

ok. thank you so much

[Sej Modha]

Hi There,

It is usally advisable to provide more details about the command that might have generated this error, please refer to How To Ask Good Questions On Technical And Scientific Forums for more info.

In the meantime, a quick Google search landed me on this page? Did you ensure that the chromosome IDs are separated by command with no spaces between them?

[annapragada.harika]

Thanks for your suggestions.. I will go through the links which you have provided. java dual_synteny_plotter -g ../MADS_box/at_ca.gff -s ../MADS_box/at_ca.collinearity -c dual_synteny_MADSbox.ctl -o dual_synteny.PNG this was the command which had generated the following error Reading gff error: For input string: "" Exception in thread "main" java.lang.NullPointerException at dual_synteny_plotter.paint(dual_synteny_plotter.java:148) at dual_synteny_plotter.main(dual_synteny_plotter.java:265).