Comments (5)
wshuai294
commented on August 16, 2024
Hello,
It seems that the SpecHLA failed to run the Linux command zless in your platform due to the lack of some dependencies. Please edit the environment so that you can run zless on your platform. Please let me know if this works.
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bsb2014
commented on August 16, 2024
NCURSES was installed.
ncurses 6.4 h59595ed_2 conda-forge
and zeless seems no problem.
(base) xxxx@srv3:~/src$ zless
Missing filename ("less --help" for help)
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bsb2014
commented on August 16, 2024
By the way, do I need to run specHLA inside the conda environment?
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bsb2014
commented on August 16, 2024
I found that the installation was not complete due to CMake problem.
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wshuai294
commented on August 16, 2024
Yes, specHLA should be run inside the conda environment.
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Related Issues (20)
- ExtractHLAread.sh HOT 5
- ExtractHLAread.sh syntax errors. HOT 4
- MICA and MICB HOT 3
- Identify somatic HLA mutation from SpecHLA HOT 6
- Performace among Novoalign V4, V3 and Bowtie2 in read-binning step HOT 2
- HLA typing only based on long-read RNA-seq data? HOT 2
- Feature request HOT 7
- Low confidence result for all HLA genes HOT 10
- Question about minimap2 parameters in long_read_typing.py HOT 15
- complaining about dependencies / empty output files HOT 11
- what's the meanning of "interval_dict" in long_read_typing.py ? HOT 7
- how to get hla_gen.format.filter.extend.DRB.no26789.fasta ? HOT 5
- Couldn't run a test on example files of exon. I saw this error related to libtinfo.so.5: version `NCURSES_TINFO_5.0.19991023' HOT 6
- Typing long reads HOT 7
- Index command fails but reports success HOT 1
- how to assign read to gene ? HOT 1
- use deep-variants calling too to replace longshot ? HOT 1
- Reason for setting bias value for annoHLA.pl
- Bug report : Cannot find sample.realign.sort.bam for long read typing
- Got different allele result for different IMGT version
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