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79 Open 91 Closed
79 Open 91 Closed
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Issues list

OutOfMemoryError: Java heap space
#174 opened Sep 3, 2024 by Ppatel09-wq
What does "Large collapsed region" mean in standard output?
#172 opened Jul 18, 2024 by ryanskiba
Pilon died mid-run
#171 opened Jun 19, 2024 by drdna
Polish a large genome with Pilon
#170 opened May 16, 2024 by enriquepola1996
2
Pilon Killed with no other error message
#169 opened Apr 15, 2024 by dorie8
1
Java out of memory
#168 opened Mar 6, 2024 by JWang52md
Memory problem
#167 opened Feb 2, 2024 by Wanjie-Feng
pilon freezes and doesnt respond
#165 opened Nov 16, 2023 by Vasudha-pai
an error?I use pilon to polish my ONT—data assembly genome. Then I got the line: Exception in thread "main" java.lang.IllegalStateException: Inappropriate call if not paired read.so what can I do next.my bam file has some error?
#164 opened Nov 6, 2023 by sugarsaman
pilon error:Exception in thread "main" java.lang.OutOfMemoryError: GC overhead limit exceeded
#163 opened Oct 24, 2023 by smoothyly
unable to access jarfile pilon-1.24.jar
#161 opened Aug 23, 2023 by tbazilegith
2
HashMap table size
#160 opened Jul 25, 2023 by rivabros2
Java heap space error while running pilon
#159 opened May 31, 2023 by saras224
Asking for indexed bam file
#158 opened May 26, 2023 by saras224
1
pilon error: Exception in thread "main" java.lang.IllegalArgumentException: Cannot add sequence that already exists in SAMSequenceDictionary: contig_1
#157 opened Mar 17, 2023 by saras224
1
Error with very short contig
#156 opened Dec 5, 2022 by bartns
Segmenting genome for quicker result
#155 opened Oct 25, 2022 by tamsinlh
How to resume
#154 opened Sep 26, 2022 by methylome
no bam file
#153 opened Sep 16, 2022 by rmormando
1
Question: Are redundant bases inside overlapping ends of paired reads counted once or twice towards consensus?
#152 opened Aug 12, 2022 by JohnUrban
fasta headers not appended but overwritten
#151 opened Aug 11, 2022 by hkaspersen
Index -1 out of bounds for length X
#150 opened Jun 16, 2022 by anitajnorman
1
Memory usage relation to file size?
#149 opened Jun 14, 2022 by snail123815
1
Make polishing stats machine-readable
#148 opened May 6, 2022 by kim-fehl
VCF format issue
#145 opened Mar 21, 2022 by jodyphelan
ProTip! no:milestone will show everything without a milestone.