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convert immunoseq file error #159

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Sophie1liu opened this issue Apr 15, 2022 · 0 comments
Open

convert immunoseq file error #159

Sophie1liu opened this issue Apr 15, 2022 · 0 comments

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@Sophie1liu
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hi,
We could like to convert the immunoseq file into vdjtool file.
the test file( immunoseq_1.txt) can work.But it has an error when it converting the work flie.

[Fri Apr 15 13:28:10 CST 2022 Convert] Reading sample(s)
[Fri Apr 15 13:28:10 CST 2022 Convert] 1 sample(s) loaded
[Fri Apr 15 13:28:10 CST 2022 SampleStreamConnection] Loading sample 1003_TCRB
[ERROR] java.lang.RuntimeException: Unable to parse clonotype string CTGGAGTCGCCCAGCCCCAACCAGACCTCTCTGTACTTCTGTGCCAGCAGTTTTATTCAGGGGAACACTGAAGCTTTCTTTGGACAA ATGGGCCCCCAGCTCCTTGGCTATGTGGTCCTTTGCCTTCTAGGAGCAGGCCCCCTGGAAGCCCAAGTGACCCAGAACCCAAGATACCTCATCACAGTGACTGGAAAGAAGTTAACAGTGACTTGTTCTCAGAATATGAACCATGAGTATATGTCCTGGTATCGACAAGACCCAGGGCTGGGCTTAAGGCAGATCTACTATTCAATGAATGTTGAGGTGACTGATAAGGGAGATGTTCCTGAAGGGTACAAAGTCTCTCGAAAAGAGAAGAGGAATTTCCCCCTGATCCTGGAGTCGCCCAGCCCCAACCAGACCTCTCTGTACTTCTGTGCCAGCAGTTTTATTCAGGGGAACACTGAAGCTTTCTTTGGACAAGGCACCAGACTCACAGTTGTAG CASSFIQGNTEAFF+TCRBV27-01+TCRBJ01-01 CASSFIQGNTEAFF 259 In VDJ 9.976311076016408E-4 135 15 201 18 327 42 39 53 57 -1 62 3 4 3 4 no data 1 01 TCRBJ01 01 01 TCRBV27 01 01 no data TCRBD01 no data TCRBD01-01 no data TCRBD01-0101 01 no data TCRBJ01 no data TCRBJ01-01 no data TCRBJ01-0101 01 no data TCRBV27 no data TCRBV27-01 no data TCRBV27-01*01 for ImmunoSeqV2 input type: Some mandatory columns are absent in the input file., see _vdjtools_error.log for details

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