Details
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Type:
Bug
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Status: In Progress
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Priority:
Major
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Resolution: Unresolved
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Affects Version/s: 2.11.4.0, 2.11.4.1, 2.11.4.2
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Component/s: Command Line Interface
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Labels:
Description
Jalview seems to process '/' differently when it is passed via JVL:
This works:
jalview.apparg=--open
jalview.apparg=https://www.jalview.org/examples/plantfdx.fa
Whereas this does not:
jalview.apparg=--open=https://www.jalview.org/examples/plantfdx.fa
The same is true on the command line:
jalview --open=https://www.jalview.org/examples/plantfdx.fa
In all cases '=' form seems to result in the protocol://location being corrupted:
ERROR - Can't find file 'https:/www.jalview.org/examples/plantfdx.fa'
Exception in thread "main" java.lang.NullPointerException
at jalview.bin.Commands.processLinked(Commands.java:504)
at jalview.bin.Commands.processArgs(Commands.java:132)
at jalview.bin.Jalview.doMain(Jalview.java:862)
at jalview.bin.Jalview.main(Jalview.java:259)
This works:
jalview.apparg=--open
jalview.apparg=https://www.jalview.org/examples/plantfdx.fa
Whereas this does not:
jalview.apparg=--open=https://www.jalview.org/examples/plantfdx.fa
The same is true on the command line:
jalview --open=https://www.jalview.org/examples/plantfdx.fa
In all cases '=' form seems to result in the protocol://location being corrupted:
ERROR - Can't find file 'https:/www.jalview.org/examples/plantfdx.fa'
Exception in thread "main" java.lang.NullPointerException
at jalview.bin.Commands.processLinked(Commands.java:504)
at jalview.bin.Commands.processArgs(Commands.java:132)
at jalview.bin.Jalview.doMain(Jalview.java:862)
at jalview.bin.Jalview.main(Jalview.java:259)
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