Mercurial > repos > fubar > jbrowse2
diff x/build_env_setup.sh @ 125:49f3d3878413 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit 5ea1f9c1eef1de76232e69aa6d34cda77d90d566
author | fubar |
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date | Sat, 05 Oct 2024 23:58:05 +0000 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/x/build_env_setup.sh Sat Oct 05 23:58:05 2024 +0000 @@ -0,0 +1,396 @@ +export CONDA_BUILD="1" +export PYTHONNOUSERSITE="1" +export CONDA_DEFAULT_ENV="/home/ross/miniconda3/envs/mulled-v1-ead19212d339c2197ed3232dcd8366627d23ccb1cf4fb8ae3186545effdca881" +export ARCH="64" +export PREFIX="/home/ross/miniconda3/envs/mulled-v1-ead19212d339c2197ed3232dcd8366627d23ccb1cf4fb8ae3186545effdca881" +export BUILD_PREFIX="/opt/conda/conda-bld/jbrowse2_1726856947541/_build_env" +export SYS_PREFIX="/opt/conda" +export SYS_PYTHON="/opt/conda/bin/python" +export SUBDIR="linux-64" +export build_platform="linux-64" +export SRC_DIR="/opt/conda/conda-bld/jbrowse2_1726856947541/work" +export ROOT="/opt/conda" +export CONDA_PY="312" +export PY3K="1" +export PY_VER="3.12" +export STDLIB_DIR="/home/ross/miniconda3/envs/mulled-v1-ead19212d339c2197ed3232dcd8366627d23ccb1cf4fb8ae3186545effdca881/lib/python3.12" +export SP_DIR="/home/ross/miniconda3/envs/mulled-v1-ead19212d339c2197ed3232dcd8366627d23ccb1cf4fb8ae3186545effdca881/lib/python3.12/site-packages" +export NPY_VER="1.26" +export CONDA_NPY="126" +export NPY_DISTUTILS_APPEND_FLAGS="1" +export PERL_VER="5.32" +export CONDA_PERL="5.32" +export LUA_VER="5" +export CONDA_LUA="5" +export R_VER="4.3.*" +export CONDA_R="4.3.*" +export PKG_NAME="jbrowse2" +export PKG_VERSION="2.15.4" +export PKG_BUILDNUM="0" +export PKG_BUILD_STRING="placeholder" +export PKG_HASH="1234567" +export RECIPE_DIR="/opt/recipe" +export CPU_COUNT="2" +export LANG="C.UTF-8" +export SHLIB_EXT=".so" +export PATH="/opt/conda/conda-bld/jbrowse2_1726856947541/_build_env/bin:/home/ross/miniconda3/envs/mulled-v1-ead19212d339c2197ed3232dcd8366627d23ccb1cf4fb8ae3186545effdca881/bin:/opt/conda/bin:/opt/conda/condabin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/home/conda/bin" +export HOME="/home/conda" +export PKG_CONFIG_PATH="/home/ross/miniconda3/envs/mulled-v1-ead19212d339c2197ed3232dcd8366627d23ccb1cf4fb8ae3186545effdca881/lib/pkgconfig" +export CMAKE_GENERATOR="Unix Makefiles" +export LD_RUN_PATH="/home/ross/miniconda3/envs/mulled-v1-ead19212d339c2197ed3232dcd8366627d23ccb1cf4fb8ae3186545effdca881/lib" +export BUILD="x86_64-conda_cos6-linux-gnu" +export zip_keys="[['c_compiler_version', 'cxx_compiler_version', 'fortran_compiler_version'], ['arrow_cpp', 'libarrow', 'libarrow_all'], ['python', 'numpy', 'python_impl'], ['c_stdlib_version', 'cdt_name']]" +export pin_run_as_build="OrderedDict([('python', {'min_pin': 'x.x', 'max_pin': 'x.x'}), ('r-base', {'max_pin': 'x.x', 'min_pin': 'x.x'}), ('flann', {'max_pin': 'x.x.x'}), ('graphviz', {'max_pin': 'x'}), ('libsvm', {'max_pin': 'x'}), ('netcdf-cxx4', {'max_pin': 'x.x'}), ('occt', {'max_pin': 'x.x'}), ('poppler', {'max_pin': 'x.x'}), ('vlfeat', {'max_pin': 'x.x.x'})])" +export extend_keys="{'ignore_version', 'pin_run_as_build', 'extend_keys', 'ignore_build_only_deps'}" +export ignore_build_only_deps="{'python', 'numpy'}" +export libyarp="3.9.0" +export libintervalxt="3" +export tk="8.6" +export libmatio="1.5.26" +export qt="5.15" +export coin_or_cgl="0.60" +export coincbc="2.10" +export pixman="0" +export libhugetlbfs="2" +export libopencv="4.9.0" +export ccr="1.3" +export superlu_dist="8" +export libsoup="3" +export pyqtwebengine="5.15" +export hdf4="4.2.15" +export gst_plugins_base="1.22" +export eclib="20231211" +export google_cloud_cpp_common="0.25.0" +export dcap="2.47" +export slepc4py="3.21" +export scotch="7.0.4" +export snappy="1.2" +export suitesparse="5" +export libblitz="1.0.2" +export libabseil_static="20220623.0" +export libflatsurf="3" +export pulseaudio="17.0" +export libcblas="3.9 *netlib" +export libgoogle_cloud_dlp_devel="2.24" +export rocksdb="9.1" +export _libgcc_mutex="0.1 conda_forge" +export gnuradio_core="3.10.10" +export librdkafka="2.4" +export libdap4="3.20.6" +export aws_c_auth="0.7.22" +export channel_targets="bioconda main" +export libhwloc="2.10.0" +export pyqt="5.15" +export cpu_optimization_target="nocona" +export assimp="5.3.1" +export mpfr="4" +export pcre2="10.43" +export gsl="2.7" +export ptscotch="7.0.4" +export xrootd="5" +export arpack="3.8" +export cxx_compiler="gxx" +export sdl2_net="2" +export target_goos="linux" +export elfutils="0.191" +export libhwy="1.1" +export uhd="4.6.0" +export petsc="3.21" +export pulseaudio_daemon="17.0" +export libeantic="2" +export libopentelemetry_cpp="1.15" +export bamtools="2.5.2" +export openblas="0.3.*" +export icu="73" +export libiio="0" +export x264="1!164.*" +export mpich="4" +export pybind11_abi="4" +export nettle="3.9" +export libwebp_base="1" +export abseil_cpp="20220623.0" +export thrift_cpp="0.18.1" +export openmpi="4" +export coin_or_cbc="2.10" +export openslide="4" +export libscotch="7.0.4" +export sdl2_mixer="2" +export fontconfig="2" +export libgoogle_cloud_oauth2_devel="2.24" +export grpc_cpp="1.52" +export libmatio_cpp="0.2.5" +export libboost_python_devel="1.82" +export openh264="2.4.1" +export pcre="8" +export vlfeat="0.9.21" +export mumps_seq="5.7.1" +export gct="6.2.1705709074" +export openssl="3" +export dbus="1" +export googleapis_cpp="0.10" +export xz="5" +export coin_or_clp="1.17" +export libcurl="8" +export aws_checksums="0.1.18" +export libtensorflow="2.15" +export libidn2="2" +export aws_c_common="0.9.19" +export google_cloud_cpp="2.24" +export libsqlite="3" +export libthrift="0.20.0" +export ucx="1.16.0" +export re2="2023.09.01" +export c_compiler="gcc" +export zlib="1.2" +export gnutls="3.7" +export aws_sdk_cpp="1.11.267" +export mpg123="1.32" +export libevent="2.1.12" +export go_compiler="go-nocgo" +export libarchive="3.7" +export msgpack_c="6" +export ntl="11.4.3" +export davix="0.8" +export libev="4.33" +export ruby="2.6" +export glog="0.6" +export libopenvino_dev="2024.1.0" +export exiv2="0.28" +export libpng="1.6" +export ncurses="6" +export lz4_c="1.9.3" +export libzip="1" +export sqlite="3" +export postgresql_plpython="16" +export libprotobuf="4.25.3" +export gdal="3.8" +export libcint="5.5" +export geos="3.12.1" +export qt6_main="6.7" +export libgdal="3.8" +export occt="7.7.2" +export lcms2="2" +export librsvg="2" +export libgoogle_cloud_bigquery_devel="2.24" +export libffi="3.4" +export tinyxml2="10" +export zstd="1.5" +export fmt="10" +export libframel="8.41" +export libgoogle_cloud_dialogflow_cx_devel="2.24" +export jsoncpp="1.9.5" +export libgoogle_cloud_dialogflow_es_devel="2.24" +export target_platform="linux-64" +export gflags="2.2" +export aws_c_sdkutils="0.1.16" +export aws_c_http="0.8.1" +export netcdf_cxx4="4.3" +export libjpeg_turbo="3" +export sox="14.4.2" +export VERBOSE_CM="VERBOSE=1" +export jasper="4" +export coin_or_osi="0.108" +export spdlog="1.12" +export libgoogle_cloud_automl_devel="2.24" +export libtorch="2.1" +export libgrpc="1.62" +export libgit2="1.8" +export readline="8" +export jpeg="9" +export libmicrohttpd="1.0" +export pari="2.15.* *_pthread" +export libv8="8.9.83" +export cuda_compiler_version="None" +export openexr="3.2" +export nspr="4" +export libssh2="1" +export urdfdom="4.0" +export tiledb="2.23" +export aws_c_compression="0.2.18" +export coin_or_utils="2.11" +export zeromq="4.3.5" +export libgoogle_cloud_policytroubleshooter_devel="2.24" +export metis="5.1.0" +export libraw="0.21" +export libpq="16" +export mimalloc="2.1.7" +export svt_av1="2.1.0" +export libpcap="1.10" +export curl="8" +export lzo="2" +export idyntree="12" +export x265="3.5" +export c_blosc2="2.14" +export libiconv="1" +export slepc="3.21" +export libflint="2.9" +export libgoogle_cloud_compute_devel="2.24" +export libvips="8" +export nlopt="2.7" +export gstreamer="1.22" +export libtensorflow_cc="2.15" +export cutensor="2" +export aws_c_s3="0.5.9" +export c_stdlib="sysroot" +export libode="0.16.2" +export zlib_ng="2.0" +export geotiff="1.7.1" +export libsecret="0.18" +export libabseil="20240116" +export hdf5="1.14.3" +export libmed="4.1" +export netcdf_fortran="4.6" +export libptscotch="7.0.4" +export libcrc32c="1.1" +export glew="2.1" +export kealib="1.5" +export sdl2_image="2" +export channel_sources="conda-forge,bioconda" +export harfbuzz="8" +export nodejs="18" +export libduckdb_devel="0.9.2" +export pytorch="2.1" +export pulseaudio_client="17.0" +export aws_crt_cpp="0.26.9" +export pango="1.50" +export alsa_lib="1.2" +export bzip2="1" +export tbb="2021" +export root_base="6.28.10" +export libnetcdf="4.9.2" +export cran_mirror="https://cran.r-project.org" +export wxwidgets="3.2" +export orc="2.0.1" +export singular="4.3.2.p8" +export libspatialindex="1.9.3" +export p11_kit="0.24" +export cuda_compiler="None" +export log4cxx="1.2.0" +export cuda_compiler_version_min="11.8" +export msgpack_cxx="6" +export libxml2="2" +export fftw="3" +export libuuid="2" +export wcslib="8" +export VERBOSE_AT="V=1" +export cudnn="8" +export mkl="2023" +export ldas_tools_framecpp="2.9" +export libgoogle_cloud_aiplatform_devel="2.24" +export pyqtchart="5.15" +export qtkeychain="0.14" +export blas_impl="blis" +export nss="3" +export gdk_pixbuf="2" +export gf2x="1.3" +export tensorflow="2.15" +export liblapacke="3.9 *netlib" +export libgoogle_cloud_spanner_devel="2.24" +export pcl="1.14.0" +export krb5="1.21" +export libsvm="332" +export libexactreal="4" +export cgo_compiler="go-cgo" +export petsc4py="3.21" +export poppler="24.04" +export aws_c_event_stream="0.4.2" +export vtk="9.2.6" +export libkml="1.3" +export libssh="0.10" +export flann="1.9.2" +export gfal2="2.22" +export cfitsio="4.3.0" +export s2n="1.4.15" +export rdma_core="51" +export json_c="0.17" +export zfp="1.0" +export libgoogle_cloud_devel="2.24" +export giflib="5.2" +export soapysdr="0.8" +export libblas="3.9 *netlib" +export openjpeg="2" +export mkl_devel="2023" +export imath="3.1.11" +export glib="2" +export libboost_devel="1.82" +export target_gobin="${PREFIX}/bin/" +export libsentencepiece="0.2.0" +export pugixml="1.14" +export antic="0.2" +export libgoogle_cloud_bigtable_devel="2.24" +export sdl2="2" +export ipopt="3.14.16" +export mumps_mpi="5.7.1" +export qt_main="5.15" +export c_ares="1" +export volk="3.1" +export libgoogle_cloud_pubsub_devel="2.24" +export aws_c_cal="0.6.14" +export ffmpeg="6" +export libunwind="1.6" +export gmp="6" +export sdl2_ttf="2" +export capnproto="1.0.2" +export isl="0.26" +export libgoogle_cloud_iam_devel="2.24" +export libaec="1" +export tbb_devel="2021" +export xerces_c="3.2" +export liblapack="3.9 *netlib" +export cairo="1" +export libtiff="4.6" +export aws_c_io="0.14.8" +export dav1d="1.2.1" +export lerc="4" +export target_goarch="amd64" +export proj="9.3.1" +export arb="2.23" +export aws_c_mqtt="0.10.4" +export libgoogle_cloud_speech_devel="2.24" +export expat="2" +export bullet_cpp="3.25" +export srm_ifce="1.24.6" +export libgoogle_cloud_storage_devel="2.24" +export libavif="1" +export postgresql="16" +export glpk="5.0" +export graphviz="9" +export lmdb="0.9.29" +export flatbuffers="24.3.25" +export libxsmm="1" +export freetype="2" +export console_bridge="1.0" +export libgoogle_cloud="2.24" +export aom="3.8" +export rust_compiler="rust" +export libgoogle_cloud_all_devel="2.24" +export libdeflate="1.20" +export nccl="2" +export libgoogle_cloud_discoveryengine_devel="2.24" +export attr="2.5" +export gsoap="2.8.123" +export starlink_ast="9.2.7" +export fortran_compiler="gfortran" +export r_base="4.3.*" +export libwebp="1" +export libsndfile="1.2" +export poco="1.13.3" +export libosqp="0.6.3" +export arrow_cpp="15" +export libarrow="15" +export libarrow_all="15" +export python_impl="cpython" +export c_stdlib_version="2.17" +export cdt_name="cos6" +export c_compiler_version="12" +export cxx_compiler_version="12" +export fortran_compiler_version="12" +export CONDA_BUILD_STATE="BUILD" +export PIP_NO_BUILD_ISOLATION="False" +export PIP_NO_DEPENDENCIES="True" +export PIP_IGNORE_INSTALLED="True" +export PIP_CACHE_DIR="/opt/conda/conda-bld/jbrowse2_1726856947541/pip_cache" +export PIP_NO_INDEX="True" +eval "$('/opt/conda/bin/python' -m conda shell.bash hook)" +conda activate "/home/ross/miniconda3/envs/mulled-v1-ead19212d339c2197ed3232dcd8366627d23ccb1cf4fb8ae3186545effdca881" +conda activate --stack "/opt/conda/conda-bld/jbrowse2_1726856947541/_build_env"