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Oct 13, 2023
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2023.10 #3321

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addressing @charles-cowart comments [skip ci]
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antgonza committed Oct 13, 2023
commit c3870a02d9225e9cc3d5c091b5703269afed4408
2 changes: 1 addition & 1 deletion CHANGELOG.md
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Expand Up @@ -5,7 +5,7 @@ Version 2023.10

* Added a new notebooks folder to the repository to allocate the resource-allocation code and plotting.
* Allowed dynamic resource allocations for time (before it was only for memory), and allowed complex formulas (via eval).
* Deployed the new resource allocation formulas. This included changes on how the ProcesingJob.shape method calculates it's variables, which include: (a) `build_analysis_files`: only use the `biom` file (vs. all of them); and (b) the SPP counts the input-file number of lines know the number of samples.
* Deployed the new resource allocation formulas. This included changes on how the ProcesingJob.shape method calculates its variables, which include: (a) `build_analysis_files`: only use the `biom` file (vs. all of them); and (b) the SPP counts the input-file number of lines know the number of samples.
* qp-woltka generates a new file: coverates.tgz, which contains: (a) artifact.cov: the coverages of this artifact, can be used with other coverages to generate combined coverages; (b) coverage_percentage.txt: the total percentage coverage per-genome of this artifact; and (c) coverages folder: the per-sample coverage.
* The SPP now supports replicates within the same lane/run and creates multiple preparations as needed.
* The SPP automatically adds and executes the default pipeline after it is done generating and linking the raw data.
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2 changes: 1 addition & 1 deletion notebooks/resource-allocation/102023.ipynb
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Expand Up @@ -3160,7 +3160,7 @@
"# *** RESOURCE ALLOCATION ***\n",
"# UPDATE qiita.processing_job_resource_allocation set \n",
"# allocation = '-p qiita -N 1 -n 1 '\n",
"# || '2*(2**30)+{input_size} if 2*(2**30)+{input_size} < 16*(2**30} else 16*(2**30}' \n",
"# || '--mem 2*(2**30)+{input_size} if 2*(2**30)+{input_size} < 16*(2**30) else 16*(2**30)' \n",
"# || '--time 36000'\n",
"# WHERE job_type = 'RESOURCE_PARAMS_COMMAND' and \n",
"# name = 'Trimming';"
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