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help!!! problem with" mixcr outcome change to vdjtools outcome through CalcBasicStats" #2

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jialin-li-cell opened this issue Aug 11, 2024 · 0 comments

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@jialin-li-cell
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emergency!!!,could anyone teach me how to solve this problem?

ljl@Jerry:~/vdjtools-1.2.1$ java --illegal-access=deny --add-opens java.base/java.lang=ALL-UNNAMED -jar vdjtools-1.2.1.jar CalcBasicStats /home/ljl/A2-8result/A2-8result.clones_TRB.tsv /home/ljl/A2-8result/A2-8output
Executing com.antigenomics.vdjtools.basic.CalcBasicStats /home/ljl/A2-8result/A2-8result.clones_TRB.tsv /home/ljl/A2-8result/A2-8output
[Sun Aug 11 14:50:12 CST 2024 CalcBasicStats] Reading sample(s)
[Sun Aug 11 14:50:13 CST 2024 CalcBasicStats] 1 sample(s) prepared
[Sun Aug 11 14:50:13 CST 2024 SampleStreamConnection] Loading sample A2-8result.clones_TRB
[ERROR] java.lang.RuntimeException: Unable to parse clonotype string 0 1953.0 3.084553729988306E-4 TGCAGTGCTAGAGATGTAGACTCTGGGACCCAGTACTTC [[[[[[[[[[[[[[[[[[[[[[[[[[[[[[[[[[[[[[[ TRBV20-100(904.6) TRBJ2-500(406.7) 679|694|713|0|15||150.0 27|40|68|26|39||130.0 TGCAGTGCTAGAGATGTAGACTCTGGGACCCAGTACTTC 58 CSARDVDSGTQYF :::::::::0:1:15:::::26:-7:39::: for VDJtools input type: Unknown symbol "3", see _vdjtools_error.log for details

could anyone please teach me how to solve this?thanks!!!

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