Add NanoSim.ipynb #6
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| name: test-CIRI-long | |
| on: [push] | |
| jobs: | |
| test: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v1 | |
| - uses: actions/setup-python@v2 | |
| with: | |
| python-version: '3.7' | |
| - name: Python unit tests | |
| run: | | |
| python3 -m venv venv3 | |
| source venv3/bin/activate | |
| make prepare | |
| make lib | |
| make test | |
| make install | |
| CIRI-long --version | |
| wget https://github.com/bioinfo-biols/CIRI-long/releases/download/v1.0/CIRI-long_test_data_v2.tar.gz | |
| tar zxvf CIRI-long_test_data_v2.tar.gz | |
| cd test_data | |
| CIRI-long call -i test_reads.fa -o ./test_call -r mm10_chr12.fa -p test -a mm10_chr12.gtf -t 2 | |
| echo "test ./test_call/test.cand_circ.fa" > ./test.list | |
| CIRI-long collapse -i ./test.list -o test_collapse -r mm10_chr12.fa -p test -a mm10_chr12.gtf -t 2 |