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missing libidn.so.11 for tbl2asn (dependency of prokka) #15760

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branfosj opened this issue Jun 24, 2022 · 0 comments
Open

missing libidn.so.11 for tbl2asn (dependency of prokka) #15760

branfosj opened this issue Jun 24, 2022 · 0 comments

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@branfosj
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This is not the 'tbl2asn expires each year' (#13417), but may fix that.

From #15366 (comment)

[10:01:14] Looking for 'tbl2asn' - found /rds/bear-apps/2019b/EL8-has/software/prokka/1.14.5-gompi-2019b/bin/../binaries/linux/tbl2asn
tbl2asn: error while loading shared libraries: libidn.so.11: cannot open shared object file: No such file or directory
[10:01:14] Could not determine version of tbl2asn - please install version 24.3 or higher 

I hacked a fix inside out install of prokka:

    # tbl2asn expects libidn.so.11 and the (different) version provided by the libidn seems fine
    "mkdir %(installdir)s/lib && cd %(installdir)s/lib && ln -s $EBROOTLIBIDN/lib/libidn.so libidn.so.11",
    # replace tbl2asn with a newer version
    "chmod +x %(installdir)s/tbl2asn && mv %(installdir)s/tbl2asn %(installdir)s/binaries/linux/tbl2asn",

Alternative, is to build from source:

wget https://ftp.ncbi.nih.gov/toolbox/ncbi_tools/CURRENT/ncbi.tar.gz
tar xzf ncbi.tar.gz
./ncbi/make/makedis.csh

Obviously that last step should be replaced with just building tbl2asn, as that last step builds lots more and fails to complete.

@boegel boegel added this to the next release (4.5.6?) milestone Jun 25, 2022
@boegel boegel changed the title tbl2asn missing libidn.so.11 missing libidn.so.11 for tbl2asn (depenency of prokka) Jun 25, 2022
@boegel boegel changed the title missing libidn.so.11 for tbl2asn (depenency of prokka) missing libidn.so.11 for tbl2asn (dependency of prokka) Jun 25, 2022
@boegel boegel modified the milestones: 4.8.0, release after 4.8.0 Jul 6, 2023
@boegel boegel modified the milestones: 4.8.1, release after 4.8.1 Sep 9, 2023
@boegel boegel modified the milestones: 4.9.1, release after 4.9.1 Apr 3, 2024
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