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milaboratory / mixcr

MiXCR is an ultimate software platform for analysis of Next-Generation Sequencing (NGS) data for immune profiling.
https://mixcr.com
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Exception in thread "main" java.util.zip.ZipException: invalid distance too far back #124

Closed MoentyPython closed 8 years ago

MoentyPython commented 8 years ago

I am trying to run mixcr align --library local -s musmusculus ... after I have imported from IMGT. I get following error message now:

Exception in thread "main" java.util.zip.ZipException: invalid distance too far back
    at java.util.zip.InflaterInputStream.read(InflaterInputStream.java:164)
    at java.util.zip.GZIPInputStream.read(GZIPInputStream.java:117)
    at com.milaboratory.core.io.sequence.fastq.FastqRecordsReader$1.read(FastqRecordsReader.java:266)
    at com.milaboratory.core.io.sequence.fastq.FastqRecordsReader$InputDataWrapper.readFully(FastqRecordsReader.java:250)
    at com.milaboratory.core.io.sequence.fastq.FastqRecordsReader.fillBuffer(FastqRecordsReader.java:124)
    at com.milaboratory.core.io.sequence.fastq.SingleFastqReader.<init>(SingleFastqReader.java:256)
    at com.milaboratory.core.io.sequence.fastq.SingleFastqReader.<init>(SingleFastqReader.java:65)
    at com.milaboratory.core.io.sequence.fastq.SingleFastqReader.<init>(SingleFastqReader.java:79)
    at com.milaboratory.mixcr.cli.ActionAlign$AlignParameters.createReader(ActionAlign.java:430)
    at com.milaboratory.mixcr.cli.ActionAlign.go(ActionAlign.java:181)
    at com.milaboratory.cli.JCommanderBasedMain.main(JCommanderBasedMain.java:147)
    at com.milaboratory.mixcr.cli.Main.main(Main.java:73)

I use java 1.8.0, however also tried it with 1.7.0 (OpenJDK Runtime Environment). Same error message for both.

MoentyPython commented 8 years ago

Apologies, my file was corrupted.

dbolotin commented 8 years ago

No problem. Cheers.