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RoboStack / ros-noetic

vinca configuration files for ros-noetic
https://robostack.github.io
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Failed to import roslz4 package #391

Closed nvander closed 10 months ago

nvander commented 10 months ago

Solution to issue cannot be found in the documentation.

Issue

When attempting to import the roslz4 module from ros-noetic-roslz4, it fails due to a missing libpython2.7.so.1.0 library.

Here is the error I see:

(base) root@0441547fb234:~# python -c "import roslz4"
Traceback (most recent call last):
  File "<string>", line 1, in <module>
  File "/opt/conda/lib/python3.9/site-packages/roslz4/__init__.py", line 33, in <module>
    from ._roslz4 import *
ImportError: libpython2.7.so.1.0: cannot open shared object file: No such file or directory

Here is the version of ros-noetic-roslz4 I have installed:

(base) root@0441547fb234:~# micromamba list ros-noetic-roslz4
List of packages in environment: "/opt/conda"

  Name               Version  Build            Channel          
──────────────────────────────────────────────────────────────────
  ros-noetic-roslz4  1.15.15  py39hac30774_15  robostack-staging

Let me know if I can provide any additional detail that may be helpful. Thanks!

Installed packages

List of packages in environment: "/opt/conda"

  Name                             Version       Build                Channel          
─────────────────────────────────────────────────────────────────────────────────────────
  _libgcc_mutex                    0.1           conda_forge          conda-forge      
  _openmp_mutex                    4.5           2_gnu                conda-forge      
  apr                              1.7.0         h7f98852_5           conda-forge      
  binutils                         2.40          hdd6e379_0           conda-forge      
  binutils_impl_linux-64           2.40          hf600244_0           conda-forge      
  binutils_linux-64                2.40          hbdbef99_1           conda-forge      
  boost-cpp                        1.78.0        h2c5509c_4           conda-forge      
  bzip2                            1.0.8         h7f98852_4           conda-forge      
  c-ares                           1.19.1        hd590300_0           conda-forge      
  c-compiler                       1.6.0         hd590300_0           conda-forge      
  ca-certificates                  2023.7.22     hbcca054_0           conda-forge      
  catkin_pkg                       0.5.2         pyhd8ed1ab_0         conda-forge      
  cmake                            3.27.4        hcfe8598_4           conda-forge      
  console_bridge                   1.0.2         h924138e_1           conda-forge      
  cxx-compiler                     1.6.0         h00ab1b0_0           conda-forge      
  distro                           1.8.0         pyhd8ed1ab_0         conda-forge      
  docutils                         0.20.1        py39hf3d152e_0       conda-forge      
  empy                             3.3.4         pyh9f0ad1d_1         conda-forge      
  expat                            2.5.0         hcb278e6_1           conda-forge      
  gcc                              12.3.0        h8d2909c_1           conda-forge      
  gcc_impl_linux-64                12.3.0        he2b93b0_0           conda-forge      
  gcc_linux-64                     12.3.0        h76fc315_1           conda-forge      
  geos                             3.12.0        h59595ed_0           conda-forge      
  gettext                          0.21.1        h27087fc_0           conda-forge      
  gmock                            1.14.0        ha770c72_1           conda-forge      
  gmp                              6.2.1         h58526e2_0           conda-forge      
  gpgme                            1.18.0        h27087fc_0           conda-forge      
  gtest                            1.14.0        h00ab1b0_1           conda-forge      
  gxx                              12.3.0        h8d2909c_1           conda-forge      
  gxx_impl_linux-64                12.3.0        he2b93b0_0           conda-forge      
  gxx_linux-64                     12.3.0        h8a814eb_1           conda-forge      
  icu                              73.2          h59595ed_0           conda-forge      
  kernel-headers_linux-64          2.6.32        he073ed8_16          conda-forge      
  keyutils                         1.6.1         h166bdaf_0           conda-forge      
  krb5                             1.21.2        h659d440_0           conda-forge      
  ld_impl_linux-64                 2.40          h41732ed_0           conda-forge      
  libapr                           1.7.0         h7f98852_5           conda-forge      
  libapriconv                      1.2.2         h7f98852_5           conda-forge      
  libaprutil                       1.6.1         h975c496_5           conda-forge      
  libassuan                        2.5.6         h59595ed_0           conda-forge      
  libblas                          3.9.0         17_linux64_openblas  conda-forge      
  libcblas                         3.9.0         17_linux64_openblas  conda-forge      
  libcurl                          8.2.1         hca28451_0           conda-forge      
  libedit                          3.1.20191231  he28a2e2_2           conda-forge      
  libev                            4.33          h516909a_1           conda-forge      
  libexpat                         2.5.0         hcb278e6_1           conda-forge      
  libffi                           3.4.2         h7f98852_5           conda-forge      
  libgcc-devel_linux-64            12.3.0        h8bca6fd_0           conda-forge      
  libgcc-ng                        13.1.0        he5830b7_0           conda-forge      
  libgfortran-ng                   13.1.0        h69a702a_0           conda-forge      
  libgfortran5                     13.1.0        h15d22d2_0           conda-forge      
  libgomp                          13.1.0        he5830b7_0           conda-forge      
  libgpg-error                     1.47          h71f35ed_0           conda-forge      
  libiconv                         1.17          h166bdaf_0           conda-forge      
  liblapack                        3.9.0         17_linux64_openblas  conda-forge      
  libnghttp2                       1.52.0        h61bc06f_0           conda-forge      
  libnsl                           2.0.0         h7f98852_0           conda-forge      
  libopenblas                      0.3.23        pthreads_h80387f5_0  conda-forge      
  libsanitizer                     12.3.0        h0f45ef3_0           conda-forge      
  libsqlite                        3.43.0        h2797004_0           conda-forge      
  libssh2                          1.11.0        h0841786_0           conda-forge      
  libstdcxx-devel_linux-64         12.3.0        h8bca6fd_0           conda-forge      
  libstdcxx-ng                     13.1.0        hfd8a6a1_0           conda-forge      
  libuuid                          2.38.1        h0b41bf4_0           conda-forge      
  libuv                            1.46.0        hd590300_0           conda-forge      
  libzlib                          1.2.13        hd590300_5           conda-forge      
  log4cxx                          0.11.0        h291d653_3           conda-forge      
  lz4                              4.3.2         py39h724f13c_0       conda-forge      
  lz4-c                            1.9.4         hcb278e6_0           conda-forge      
  ncurses                          6.4           hcb278e6_0           conda-forge      
  netifaces                        0.11.0        py39hb9d737c_1       conda-forge      
  nose                             1.3.7         py_1006              conda-forge      
  numpy                            1.25.2        py39h6183b62_0       conda-forge      
  openssl                          3.1.2         hd590300_0           conda-forge      
  pip                              23.2.1        pyhd8ed1ab_0         conda-forge      
  pkg-config                       0.29.2        h36c2ea0_1008        conda-forge      
  poco                             1.12.4        h08a2579_0           conda-forge      
  pycryptodome                     3.18.0        py39h6f9bf71_0       conda-forge      
  pycryptodomex                    3.18.0        py39hd1e30aa_0       conda-forge      
  pyparsing                        3.1.1         pyhd8ed1ab_0         conda-forge      
  python                           3.9.13        h2660328_0_cpython   conda-forge      
  python-dateutil                  2.8.2         pyhd8ed1ab_0         conda-forge      
  python-gnupg                     0.5.0         pyhd8ed1ab_0         conda-forge      
  python_abi                       3.9           3_cp39               conda-forge      
  pyyaml                           6.0.1         py39hd1e30aa_0       conda-forge      
  readline                         8.2           h8228510_1           conda-forge      
  rhash                            1.4.4         hd590300_0           conda-forge      
  ros-distro-mutex                 0.4.0         noetic               robostack-staging
  ros-noetic-catkin                0.8.10        py39hac30774_15      robostack-staging
  ros-noetic-class-loader          0.5.0         py39hd72fd0a_15      robostack-staging
  ros-noetic-cpp-common            0.7.2         py39hc1d770b_15      robostack-staging
  ros-noetic-gencpp                0.7.0         py39hac30774_15      robostack-staging
  ros-noetic-geneus                3.0.0         py39hac30774_15      robostack-staging
  ros-noetic-genlisp               0.4.18        py39hac30774_15      robostack-staging
  ros-noetic-genmsg                0.6.0         py39hac30774_15      robostack-staging
  ros-noetic-gennodejs             2.0.2         py39hac30774_15      robostack-staging
  ros-noetic-genpy                 0.6.15        py39hac30774_15      robostack-staging
  ros-noetic-geometry-msgs         1.13.1        py39hac30774_15      robostack-staging
  ros-noetic-message-generation    0.4.1         py39hac30774_15      robostack-staging
  ros-noetic-message-runtime       0.4.13        py39hac30774_15      robostack-staging
  ros-noetic-pluginlib             1.13.0        py39h7534eef_15      robostack-staging
  ros-noetic-ros-environment       1.3.2         py39hac30774_15      robostack-staging
  ros-noetic-rosbag                1.15.15       py39h873cbd0_15      robostack-staging
  ros-noetic-rosbag-storage        1.16.0        py39hbd60425_15      robostack-staging
  ros-noetic-rosbuild              1.15.8        py39hac30774_15      robostack-staging
  ros-noetic-rosconsole            1.14.3        py39hc7694d4_15      robostack-staging
  ros-noetic-roscpp                1.15.15       py39h873cbd0_15      robostack-staging
  ros-noetic-roscpp-serialization  0.7.2         py39hac30774_15      robostack-staging
  ros-noetic-roscpp-traits         0.7.2         py39hac30774_15      robostack-staging
  ros-noetic-rosgraph              1.15.15       py39hac30774_15      robostack-staging
  ros-noetic-rosgraph-msgs         1.11.3        py39hac30774_15      robostack-staging
  ros-noetic-roslib                1.15.8        py39h873cbd0_15      robostack-staging
  ros-noetic-roslz4                1.15.15       py39hac30774_15      robostack-staging
  ros-noetic-rospack               2.6.2         py39h7534eef_15      robostack-staging
  ros-noetic-rospy                 1.15.15       py39hac30774_15      robostack-staging
  ros-noetic-rostime               0.7.2         py39h873cbd0_15      robostack-staging
  ros-noetic-std-msgs              0.5.13        py39hac30774_15      robostack-staging
  ros-noetic-std-srvs              1.11.3        py39hac30774_15      robostack-staging
  ros-noetic-topic-tools           1.15.15       py39hac30774_15      robostack-staging
  ros-noetic-xmlrpcpp              1.15.15       py39h873cbd0_15      robostack-staging
  rosdep                           0.22.2        pyhd8ed1ab_1         conda-forge      
  rosdistro                        0.9.0         py39hf3d152e_0       conda-forge      
  rospkg                           1.5.0         pyhd8ed1ab_0         conda-forge      
  setuptools                       68.1.2        pyhd8ed1ab_0         conda-forge      
  six                              1.16.0        pyh6c4a22f_0         conda-forge      
  sqlite                           3.43.0        h2c6b66d_0           conda-forge      
  sysroot_linux-64                 2.12          he073ed8_16          conda-forge      
  tinyxml2                         9.0.0         h9c3ff4c_2           conda-forge      
  tk                               8.6.12        h27826a3_0           conda-forge      
  tzdata                           2023c         h71feb2d_0           conda-forge      
  unixodbc                         2.3.12        h661eb56_0           conda-forge      
  wheel                            0.41.2        pyhd8ed1ab_0         conda-forge      
  xz                               5.2.6         h166bdaf_0           conda-forge      
  yaml                             0.2.5         h7f98852_2           conda-forge      
  zstd                             1.5.5         hfc55251_0           conda-forge

Environment info

(base) root@0441547fb234:~# micromamba info

       libmamba version : 1.4.7
     micromamba version : 1.4.7
           curl version : libcurl/7.88.1 OpenSSL/3.1.1 zlib/1.2.13 zstd/1.5.2 libssh2/1.11.0 nghttp2/1.52.0
     libarchive version : libarchive 3.6.2 zlib/1.2.13 bz2lib/1.0.8 libzstd/1.5.2
       envs directories : /opt/conda/envs
          package cache : /opt/conda/pkgs
                          /root/.mamba/pkgs
            environment : base (active)
           env location : /opt/conda
      user config files : /root/.mambarc
 populated config files : 
       virtual packages : __unix=0=0
                          __linux=6.2.0=0
                          __glibc=2.31=0
                          __archspec=1=x86_64
               channels : 
       base environment : /opt/conda
               platform : linux-64
nvander commented 10 months ago

OK, I may have been too quick to report this issue. It looks like the culprit may be a downstream pip install of the bagpy library clobbering some roslz4 files. If I do an install of just ros-noetic-roslz4 in a new environment, then the roslz4 module imports just fine and I am able to work with lz4-compressed bag files.

Sorry for the trouble and thanks for being quick to respond!

Tobias-Fischer commented 10 months ago

Great to hear you managed to find the culprit! Bagpy should be easy to move to conda forge via grayskull, give it a go if you like and let me know if you run into issues.