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| name: Test Collect Metadata Script | ||
|
|
||
| on: | ||
| push: | ||
| branches: | ||
| - main | ||
| pull_request: | ||
|
|
||
| jobs: | ||
| test: | ||
| runs-on: ubuntu-latest | ||
| strategy: | ||
| matrix: | ||
| include: | ||
| - series_id: GSE191067 | ||
| - series_id: GSE264508 | ||
| - series_id: GSE274955 | ||
| - series_id: GSE250130 | ||
|
|
||
| steps: | ||
| - name: Checkout repository | ||
| uses: actions/checkout@v3 | ||
|
|
||
| - name: Set up environment | ||
| run: | | ||
| sudo apt-get update | ||
| sudo apt-get install -y wget perl curl jq | ||
| - name: Run metadata collection tests | ||
| run: | | ||
| chmod +x ./scripts/* | ||
| chmod +x ./tests/test_metadata.sh | ||
| ./tests/test_metadata.sh ${matrix.series_id} |
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| GSM5738231 SRS11329588 SRX13428615 SRR17249694,SRR17249695,SRR17249696,SRR17249697 | ||
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| GSM5738241 SRS11329598 SRX13428624 SRR17249656,SRR17249657,SRR17249658,SRR17249659 |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,44 @@ | ||
| SRR17249654 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249654/SRR17249654.lite.1 SRA | ||
| SRR17249655 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249655/SRR17249655.lite.1 SRA | ||
| SRR17249656 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249656/SRR17249656.lite.1 SRA | ||
| SRR17249657 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249657/SRR17249657.lite.1 SRA | ||
| SRR17249658 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249658/SRR17249658.lite.1 SRA | ||
| SRR17249659 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249659/SRR17249659.lite.1 SRA | ||
| SRR17249660 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249660/SRR17249660.lite.1 SRA | ||
| SRR17249661 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249661/SRR17249661.lite.1 SRA | ||
| SRR17249662 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249662/SRR17249662.lite.1 SRA | ||
| SRR17249663 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249663/SRR17249663.lite.1 SRA | ||
| SRR17249664 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249664/SRR17249664.lite.1 SRA | ||
| SRR17249665 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249665/SRR17249665.lite.1 SRA | ||
| SRR17249666 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249666/SRR17249666.lite.1 SRA | ||
| SRR17249667 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249667/SRR17249667.lite.1 SRA | ||
| SRR17249668 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249668/SRR17249668.lite.1 SRA | ||
| SRR17249669 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249669/SRR17249669.lite.1 SRA | ||
| SRR17249670 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249670/SRR17249670.lite.1 SRA | ||
| SRR17249671 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249671/SRR17249671.lite.1 SRA | ||
| SRR17249672 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249672/SRR17249672.lite.1 SRA | ||
| SRR17249673 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249673/SRR17249673.lite.1 SRA | ||
| SRR17249674 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249674/SRR17249674.lite.1 SRA | ||
| SRR17249675 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249675/SRR17249675.lite.1 SRA | ||
| SRR17249676 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249676/SRR17249676.lite.1 SRA | ||
| SRR17249677 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249677/SRR17249677.lite.1 SRA | ||
| SRR17249678 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249678/SRR17249678.lite.1 SRA | ||
| SRR17249679 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249679/SRR17249679.lite.1 SRA | ||
| SRR17249680 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249680/SRR17249680.lite.1 SRA | ||
| SRR17249681 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249681/SRR17249681.lite.1 SRA | ||
| SRR17249682 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249682/SRR17249682.lite.1 SRA | ||
| SRR17249683 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249683/SRR17249683.lite.1 SRA | ||
| SRR17249684 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249684/SRR17249684.lite.1 SRA | ||
| SRR17249685 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249685/SRR17249685.lite.1 SRA | ||
| SRR17249686 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249686/SRR17249686.lite.1 SRA | ||
| SRR17249687 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249687/SRR17249687.lite.1 SRA | ||
| SRR17249688 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249688/SRR17249688.lite.1 SRA | ||
| SRR17249689 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249689/SRR17249689.lite.1 SRA | ||
| SRR17249690 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249690/SRR17249690.lite.1 SRA | ||
| SRR17249691 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249691/SRR17249691.lite.1 SRA | ||
| SRR17249692 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249692/SRR17249692.lite.1 SRA | ||
| SRR17249693 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249693/SRR17249693.lite.1 SRA | ||
| SRR17249694 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249694/SRR17249694.lite.1 SRA | ||
| SRR17249695 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249695/SRR17249695.lite.1 SRA | ||
| SRR17249696 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249696/SRR17249696.lite.1 SRA | ||
| SRR17249697 Homo sapiens https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249697/SRR17249697.lite.1 SRA |
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| SRR17249654 | ||
| SRR17249655 | ||
| SRR17249656 | ||
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| SRR17249658 | ||
| SRR17249659 | ||
| SRR17249660 | ||
| SRR17249661 | ||
| SRR17249662 | ||
| SRR17249663 | ||
| SRR17249664 | ||
| SRR17249665 | ||
| SRR17249666 | ||
| SRR17249667 | ||
| SRR17249668 | ||
| SRR17249669 | ||
| SRR17249670 | ||
| SRR17249671 | ||
| SRR17249672 | ||
| SRR17249673 | ||
| SRR17249674 | ||
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| SRR17249683 | ||
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| SRR17249685 | ||
| SRR17249686 | ||
| SRR17249687 | ||
| SRR17249688 | ||
| SRR17249689 | ||
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| SRR17249691 | ||
| SRR17249692 | ||
| SRR17249693 | ||
| SRR17249694 | ||
| SRR17249695 | ||
| SRR17249696 | ||
| SRR17249697 |
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| GSM5738231 | ||
| GSM5738232 | ||
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| GSM5738239 | ||
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|---|---|---|
| @@ -0,0 +1,11 @@ | ||
| GSM5738231 SRR17249694,SRR17249695,SRR17249696,SRR17249697 | ||
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| GSM5738235 SRR17249654,SRR17249655,SRR17249688,SRR17249689 | ||
| GSM5738236 SRR17249676,SRR17249677,SRR17249678,SRR17249679 | ||
| GSM5738237 SRR17249672,SRR17249673,SRR17249674,SRR17249675 | ||
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| GSM5738240 SRR17249660,SRR17249661,SRR17249662,SRR17249663 | ||
| GSM5738241 SRR17249656,SRR17249657,SRR17249658,SRR17249659 |
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| https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249654/SRR17249654.lite.1 | ||
| https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249655/SRR17249655.lite.1 | ||
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| https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249668/SRR17249668.lite.1 | ||
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| https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249671/SRR17249671.lite.1 | ||
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| https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249673/SRR17249673.lite.1 | ||
| https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249674/SRR17249674.lite.1 | ||
| https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249675/SRR17249675.lite.1 | ||
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| https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249677/SRR17249677.lite.1 | ||
| https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249678/SRR17249678.lite.1 | ||
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| https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249692/SRR17249692.lite.1 | ||
| https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249693/SRR17249693.lite.1 | ||
| https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249694/SRR17249694.lite.1 | ||
| https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249695/SRR17249695.lite.1 | ||
| https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249696/SRR17249696.lite.1 | ||
| https://sra-downloadb.be-md.ncbi.nlm.nih.gov/sos6/sra-pub-zq-40/SRR017/17249/SRR17249697/SRR17249697.lite.1 |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,28 @@ | ||
| GSM7974277 SRS19844433 SRX22870939 SRR27190826 | ||
| GSM7974278 SRS19844434 SRX22870940 SRR27190825 | ||
| GSM7974279 SRS19844445 SRX22870951 SRR27190814 | ||
| GSM7974280 SRS19844454 SRX22870960 SRR27190805 | ||
| GSM7974281 SRS19844455 SRX22870961 SRR27190804 | ||
| GSM7974282 SRS19844456 SRX22870962 SRR27190803 | ||
| GSM7974283 SRS19844457 SRX22870963 SRR27190802 | ||
| GSM7974284 SRS19844458 SRX22870964 SRR27190801 | ||
| GSM7974285 SRS19844459 SRX22870965 SRR27190800 | ||
| GSM7974286 SRS19844460 SRX22870966 SRR27190799 | ||
| GSM7974287 SRS19844435 SRX22870941 SRR27190824 | ||
| GSM7974288 SRS19844436 SRX22870942 SRR27190823 | ||
| GSM7974289 SRS19844437 SRX22870943 SRR27190822 | ||
| GSM7974290 SRS19844438 SRX22870944 SRR27190821 | ||
| GSM7974291 SRS19844439 SRX22870945 SRR27190820 | ||
| GSM7974292 SRS19844440 SRX22870946 SRR27190819 | ||
| GSM7974293 SRS19844441 SRX22870947 SRR27190818 | ||
| GSM7974294 SRS19844442 SRX22870948 SRR27190817 | ||
| GSM7974295 SRS19844443 SRX22870949 SRR27190816 | ||
| GSM7974296 SRS19844444 SRX22870950 SRR27190815 | ||
| GSM7974297 SRS19844446 SRX22870952 SRR27190813 | ||
| GSM7974298 SRS19844447 SRX22870953 SRR27190812 | ||
| GSM7974299 SRS19844448 SRX22870954 SRR27190811 | ||
| GSM7974300 SRS19844449 SRX22870955 SRR27190810 | ||
| GSM7974301 SRS19844450 SRX22870956 SRR27190809 | ||
| GSM7974302 SRS19844451 SRX22870957 SRR27190808 | ||
| GSM7974303 SRS19844452 SRX22870958 SRR27190807 | ||
| GSM7974304 SRS19844453 SRX22870959 SRR27190806 |
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