Mercurial > repos > fubar > egapx_runner
annotate examples/input_D_farinae_minimal.yaml @ 7:9c778770514f draft
planemo upload for repository https://github.com/ncbi/egapx commit 7d4eea19157be8d7b184cb066d05d81c73f13a04-dirty
author | fubar |
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date | Sun, 04 Aug 2024 13:21:59 +0000 |
parents | d9c5c5b87fec |
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d9c5c5b87fec
planemo upload for repository https://github.com/ncbi/egapx commit 8173d01b08d9a91c9ec5f6cb50af346edc8020c4
fubar
parents:
diff
changeset
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1 # This is a very minimal example of EGAPx, it fits into 4 CPU cores and 6GB of memory. |
d9c5c5b87fec
planemo upload for repository https://github.com/ncbi/egapx commit 8173d01b08d9a91c9ec5f6cb50af346edc8020c4
fubar
parents:
diff
changeset
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2 # To be able to do this, we culled the input files and some stages of execution. |
d9c5c5b87fec
planemo upload for repository https://github.com/ncbi/egapx commit 8173d01b08d9a91c9ec5f6cb50af346edc8020c4
fubar
parents:
diff
changeset
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3 # To limit the requirements you also need to use -e docker_minimal |
d9c5c5b87fec
planemo upload for repository https://github.com/ncbi/egapx commit 8173d01b08d9a91c9ec5f6cb50af346edc8020c4
fubar
parents:
diff
changeset
|
4 |
d9c5c5b87fec
planemo upload for repository https://github.com/ncbi/egapx commit 8173d01b08d9a91c9ec5f6cb50af346edc8020c4
fubar
parents:
diff
changeset
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5 genome: https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/020/809/275/GCF_020809275.1_ASM2080927v1/GCF_020809275.1_ASM2080927v1_genomic.fna.gz |
d9c5c5b87fec
planemo upload for repository https://github.com/ncbi/egapx commit 8173d01b08d9a91c9ec5f6cb50af346edc8020c4
fubar
parents:
diff
changeset
|
6 reads: |
d9c5c5b87fec
planemo upload for repository https://github.com/ncbi/egapx commit 8173d01b08d9a91c9ec5f6cb50af346edc8020c4
fubar
parents:
diff
changeset
|
7 - https://ftp.ncbi.nlm.nih.gov/genomes/TOOLS/EGAP/sample_data/Dermatophagoides_farinae_small/SRR8506572.1 |
d9c5c5b87fec
planemo upload for repository https://github.com/ncbi/egapx commit 8173d01b08d9a91c9ec5f6cb50af346edc8020c4
fubar
parents:
diff
changeset
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8 - https://ftp.ncbi.nlm.nih.gov/genomes/TOOLS/EGAP/sample_data/Dermatophagoides_farinae_small/SRR8506572.2 |
d9c5c5b87fec
planemo upload for repository https://github.com/ncbi/egapx commit 8173d01b08d9a91c9ec5f6cb50af346edc8020c4
fubar
parents:
diff
changeset
|
9 - https://ftp.ncbi.nlm.nih.gov/genomes/TOOLS/EGAP/sample_data/Dermatophagoides_farinae_small/SRR9005248.1 |
d9c5c5b87fec
planemo upload for repository https://github.com/ncbi/egapx commit 8173d01b08d9a91c9ec5f6cb50af346edc8020c4
fubar
parents:
diff
changeset
|
10 - https://ftp.ncbi.nlm.nih.gov/genomes/TOOLS/EGAP/sample_data/Dermatophagoides_farinae_small/SRR9005248.2 |
d9c5c5b87fec
planemo upload for repository https://github.com/ncbi/egapx commit 8173d01b08d9a91c9ec5f6cb50af346edc8020c4
fubar
parents:
diff
changeset
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11 taxid: 6954 |
d9c5c5b87fec
planemo upload for repository https://github.com/ncbi/egapx commit 8173d01b08d9a91c9ec5f6cb50af346edc8020c4
fubar
parents:
diff
changeset
|
12 proteins: [] |
d9c5c5b87fec
planemo upload for repository https://github.com/ncbi/egapx commit 8173d01b08d9a91c9ec5f6cb50af346edc8020c4
fubar
parents:
diff
changeset
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13 hmm: https://ftp.ncbi.nlm.nih.gov/genomes/TOOLS/EGAP/gnomon/hmm_parameters/6956.params |
d9c5c5b87fec
planemo upload for repository https://github.com/ncbi/egapx commit 8173d01b08d9a91c9ec5f6cb50af346edc8020c4
fubar
parents:
diff
changeset
|
14 tasks: |
d9c5c5b87fec
planemo upload for repository https://github.com/ncbi/egapx commit 8173d01b08d9a91c9ec5f6cb50af346edc8020c4
fubar
parents:
diff
changeset
|
15 star_wnode: |
d9c5c5b87fec
planemo upload for repository https://github.com/ncbi/egapx commit 8173d01b08d9a91c9ec5f6cb50af346edc8020c4
fubar
parents:
diff
changeset
|
16 star_wnode: -cpus-per-worker 4 |