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bioinfo-biols / CIRI-cookbook

Document for CIRI-series software
https://ciri-cookbook.readthedocs.io/en/latest/index.html
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java error when running CIRI_VIS #13

Open Alipe2021 opened 2 years ago

Alipe2021 commented 2 years ago

Hi guys,

I got an new error when running the command: java -jar /opt/biosoft/CIRI-full_v2.0/CIRI-vis_v1.4.jar -i out_merge_circRNA_detail.anno -l output_library_length.list -r zma_dna_v4.fa -min 1 -d test_outdir -o circRNA . I donot fix it. Can any one help me.

Exception in thread "main" java.lang.IndexOutOfBoundsException: Index 0 out of bounds for length 0
        at java.base/jdk.internal.util.Preconditions.outOfBounds(Preconditions.java:64)
        at java.base/jdk.internal.util.Preconditions.outOfBoundsCheckIndex(Preconditions.java:70)
        at java.base/jdk.internal.util.Preconditions.checkIndex(Preconditions.java:248)
        at java.base/java.util.Objects.checkIndex(Objects.java:372)
        at java.base/java.util.ArrayList.get(ArrayList.java:459)
        at sample_MIX_all_easy4.paint(sample_MIX_all_easy4.java:1278)
        at CIRI_vis_test.main(CIRI_vis_test.java:457)

图片

OS: opensuse 15.2 Java version: 图片

CIRI-vis 1.4

Kevinzjy commented 2 years ago

Hi @Alipe2021 , could you try the latest version of CIRI-vis from https://github.com/bioinfo-biols/CIRI-vis ? The executable jar file is located under the bin directory.