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Cannot add LibSSH2_jll #125

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izahn opened this issue Sep 10, 2021 · 1 comment · Fixed by #126
Closed
1 task done

Cannot add LibSSH2_jll #125

izahn opened this issue Sep 10, 2021 · 1 comment · Fixed by #126

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@izahn
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izahn commented Sep 10, 2021

Issue:

When trying to add libSSH2_jll I get this error:

 ~ $ julia                                                                                                                                         (julia2) 
               _
   _       _ _(_)_     |  Documentation: https://docs.julialang.org
  (_)     | (_) (_)    |
   _ _   _| |_  __ _   |  Type "?" for help, "]?" for Pkg help.
  | | | | | | |/ _` |  |
  | | |_| | | | (_| |  |  Version 1.6.2 (2021-07-14)
 _/ |\__'_|_|_|\__'_|  |  conda-forge-julia release
|__/                   |

julia> import Pkg

julia> Pkg.add("LibSSH2_jll")
  Installing known registries into `~/.julia`
       Added registry `General` to `~/.julia/registries/General`
   Resolving package versions...
    Updating `~/.julia/environments/v1.6/Project.toml`
  [29816b5a] + LibSSH2_jll
    Updating `~/.julia/environments/v1.6/Manifest.toml`
  [56f22d72] + Artifacts
  [8f399da3] + Libdl
  [29816b5a] + LibSSH2_jll
  [c8ffd9c3] + MbedTLS_jll
Precompiling project...
  ✗ LibSSH2_jll
  1 dependency successfully precompiled in 4 seconds
  1 dependency errored. To see a full report either run `import Pkg; Pkg.precompile()` or load the package

julia> import LibSSH2_jll
[ Info: Precompiling LibSSH2_jll [29816b5a-b9ab-546f-933c-edad1886dfa8]
ERROR: LoadError: InitError: could not load library "libmbedcrypto.so.5"
libmbedcrypto.so.5: cannot open shared object file: No such file or directory
Stacktrace:
  [1] dlopen(s::String, flags::UInt32; throw_error::Bool)
    @ Base.Libc.Libdl ./libdl.jl:114
  [2] dlopen (repeats 2 times)
    @ ./libdl.jl:114 [inlined]
  [3] __init__()
    @ MbedTLS_jll ~/mambaforge/envs/julia2/share/julia/stdlib/v1.6/MbedTLS_jll/src/MbedTLS_jll.jl:40
  [4] _include_from_serialized(path::String, depmods::Vector{Any})
    @ Base ./loading.jl:696
  [5] _require_search_from_serialized(pkg::Base.PkgId, sourcepath::String)
    @ Base ./loading.jl:782
  [6] _require(pkg::Base.PkgId)
    @ Base ./loading.jl:1020
  [7] require(uuidkey::Base.PkgId)
    @ Base ./loading.jl:936
  [8] require(into::Module, mod::Symbol)
    @ Base ./loading.jl:923
  [9] include
    @ ./Base.jl:386 [inlined]
 [10] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt64}}, source::Nothing)
    @ Base ./loading.jl:1235
 [11] top-level scope
    @ none:1
 [12] eval
    @ ./boot.jl:360 [inlined]
 [13] eval(x::Expr)
    @ Base.MainInclude ./client.jl:446
 [14] top-level scope
    @ none:1
during initialization of module MbedTLS_jll
in expression starting at /home/izahn/mambaforge/envs/julia2/share/julia/stdlib/v1.6/LibSSH2_jll/src/LibSSH2_jll.jl:5
ERROR: Failed to precompile LibSSH2_jll [29816b5a-b9ab-546f-933c-edad1886dfa8] to /home/izahn/.julia/compiled/v1.6/LibSSH2_jll/jl_I1yS8u.
Stacktrace:
 [1] error(s::String)
   @ Base ./error.jl:33
 [2] compilecache(pkg::Base.PkgId, path::String, internal_stderr::Base.TTY, internal_stdout::Base.TTY, ignore_loaded_modules::Bool)
   @ Base ./loading.jl:1385
 [3] compilecache(pkg::Base.PkgId, path::String)
   @ Base ./loading.jl:1329
 [4] _require(pkg::Base.PkgId)
   @ Base ./loading.jl:1043
 [5] require(uuidkey::Base.PkgId)
   @ Base ./loading.jl:936
 [6] require(into::Module, mod::Symbol)
   @ Base ./loading.jl:923

Environment (conda list): 
$ conda list
# packages in environment at /home/izahn/mambaforge/envs/julia2:
#
# Name                    Version                   Build  Channel
_libgcc_mutex             0.1                 conda_forge    conda-forge
_openmp_mutex             4.5                       1_gnu    conda-forge
arpack                    3.7.0                hdefa2d7_2    conda-forge
bzip2                     1.0.8                h7f98852_4    conda-forge
c-ares                    1.17.2               h7f98852_0    conda-forge
ca-certificates           2021.5.30            ha878542_0    conda-forge
curl                      7.78.0               hea6ffbf_0    conda-forge
expat                     2.4.1                h9c3ff4c_0    conda-forge
gettext                   0.19.8.1          h73d1719_1006    conda-forge
git                       2.33.0          pl5321hc30692c_0    conda-forge
gmp                       6.2.1                h58526e2_0    conda-forge
julia                     1.6.2                hbb0e23a_1    conda-forge
krb5                      1.19.2               hcc1bbae_0    conda-forge
libblas                   3.9.0           11_linux64_openblas    conda-forge
libcblas                  3.9.0           11_linux64_openblas    conda-forge
libcurl                   7.78.0               h2574ce0_0    conda-forge
libedit                   3.1.20191231         he28a2e2_2    conda-forge
libev                     4.33                 h516909a_1    conda-forge
libffi                    3.4.2                h9c3ff4c_1    conda-forge
libgcc-ng                 11.1.0               hc902ee8_8    conda-forge
libgfortran-ng            11.1.0               h69a702a_8    conda-forge
libgfortran5              11.1.0               h6c583b3_8    conda-forge
libgit2                   1.1.1                hee63804_1    conda-forge
libgomp                   11.1.0               hc902ee8_8    conda-forge
libiconv                  1.16                 h516909a_0    conda-forge
liblapack                 3.9.0           11_linux64_openblas    conda-forge
libnghttp2                1.43.0               h812cca2_0    conda-forge
libopenblas               0.3.17          pthreads_h8fe5266_1    conda-forge
libopenblas-ilp64         0.3.17          pthreads_h0aa5bea_1    conda-forge
libssh2                   1.10.0               ha56f1ee_0    conda-forge
libstdcxx-ng              11.1.0               h56837e0_8    conda-forge
libunwind                 1.5.0                h9c3ff4c_1    conda-forge
libutf8proc               2.6.1                h7f98852_0    conda-forge
metis                     5.1.0             h58526e2_1006    conda-forge
mpfr                      4.1.0                h9202a9a_1    conda-forge
ncurses                   6.2                  h58526e2_4    conda-forge
openblas-ilp64            0.3.17          pthreads_h3d04fff_1    conda-forge
openlibm                  0.7.0                h516909a_0    conda-forge
openssl                   1.1.1l               h7f98852_0    conda-forge
p7zip                     16.02             he1b5a44_1000    conda-forge
pcre2                     10.37                h032f7d1_0    conda-forge
perl                      5.32.1          0_h7f98852_perl5    conda-forge
suitesparse               5.4.0                h717dc36_0    conda-forge
tbb                       2020.2               h4bd325d_4    conda-forge
tk                        8.6.11               h27826a3_1    conda-forge
zlib                      1.2.11            h516909a_1010    conda-forge

Details about conda and system ( conda info ): 
$ conda info
     active environment : julia2
    active env location : /home/izahn/mambaforge/envs/julia2
            shell level : 2
       user config file : /home/izahn/.condarc
 populated config files : /home/izahn/mambaforge/.condarc
                          /home/izahn/.condarc
          conda version : 4.10.3
    conda-build version : 3.21.4
         python version : 3.9.7.final.0
       virtual packages : __linux=5.13.13=0
                          __glibc=2.33=0
                          __unix=0=0
                          __archspec=1=x86_64
       base environment : /home/izahn/mambaforge  (writable)
      conda av data dir : /home/izahn/mambaforge/etc/conda
  conda av metadata url : None
           channel URLs : https://conda.anaconda.org/conda-forge/linux-64
                          https://conda.anaconda.org/conda-forge/noarch
                          https://repo.anaconda.com/pkgs/main/linux-64
                          https://repo.anaconda.com/pkgs/main/noarch
                          https://repo.anaconda.com/pkgs/r/linux-64
                          https://repo.anaconda.com/pkgs/r/noarch
          package cache : /home/izahn/mambaforge/pkgs
                          /home/izahn/.conda/pkgs
       envs directories : /home/izahn/mambaforge/envs
                          /home/izahn/.conda/envs
               platform : linux-64
             user-agent : conda/4.10.3 requests/2.26.0 CPython/3.9.7 Linux/5.13.13-arch1-1 arch/rolling glibc/2.33
                UID:GID : 1000:1000
             netrc file : None
           offline mode : False
@izahn izahn mentioned this issue Sep 10, 2021
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@izahn
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izahn commented Sep 10, 2021

This will be fixed by #126

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Mbedtls izahn/julia-feedstock
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@izahn