diff --git a/.github/workflows/qiita-plugin-ci.yml b/.github/workflows/qiita-plugin-ci.yml index eaa8ef2..0560cbd 100644 --- a/.github/workflows/qiita-plugin-ci.yml +++ b/.github/workflows/qiita-plugin-ci.yml @@ -80,14 +80,14 @@ jobs: conda config --add channels bioconda # installing qtp-sequencing - conda create -q --yes -n qtp-sequencing python=3.6 pip pigz quast - conda activate qtp-sequencing - pip --quiet install https://github.com/qiita-spots/qtp-sequencing/archive/master.zip - export QIITA_SERVER_CERT=`pwd`/qiita-dev/qiita_core/support_files/ci_rootca.crt - export QIITA_CONFIG_FP=`pwd`/qiita-dev/qiita_core/support_files/config_test_local.cfg - configure_qtp_sequencing --env-script "source /home/runner/.profile; conda activate qtp-sequencing" --server-cert $QIITA_SERVER_CERT + # conda create -q --yes -n qtp-sequencing python=3.6 pip pigz quast + # conda activate qtp-sequencing + # pip --quiet install https://github.com/qiita-spots/qtp-sequencing/archive/master.zip + # export QIITA_SERVER_CERT=`pwd`/qiita-dev/qiita_core/support_files/ci_rootca.crt + # export QIITA_CONFIG_FP=`pwd`/qiita-dev/qiita_core/support_files/config_test_local.cfg + # configure_qtp_sequencing --env-script "source /home/runner/.profile; conda activate qtp-sequencing" --server-cert $QIITA_SERVER_CERT - conda deactivate + # conda deactivate # installing this plugin conda create -q --yes -n qp-spades python=3.11 cmake clang zlib flash # spades=3.15.4 @@ -95,8 +95,8 @@ jobs: # installing cloudspades wget https://github.com/ablab/spades/archive/refs/tags/cloudspades-0.1.tar.gz - tar -zxf cloudspades-0.1.tar.gz - cd cloudspades-0.1/assembler + tar zxvf cloudspades-0.1.tar.gz + cd spades-cloudspades-0.1/assembler/ sh spades_compile.sh bin/spades.py --test