Mercurial > repos > iuc > lexicmap

annotate test-data/db2.lmi/info.toml @ 3:cefde4c7f92e draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/lexicmap commit a9227295a4cebc34b17def7b5ca3e4506222b963
author iuc
date Fri, 26 Sep 2025 20:47:13 +0000
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3
cefde4c7f92e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/lexicmap commit a9227295a4cebc34b17def7b5ca3e4506222b963
iuc
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diff changeset
1 # Index format
cefde4c7f92e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/lexicmap commit a9227295a4cebc34b17def7b5ca3e4506222b963
iuc
parents:
diff changeset
2 main-version = 3
cefde4c7f92e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/lexicmap commit a9227295a4cebc34b17def7b5ca3e4506222b963
iuc
parents:
diff changeset
3 minor-version = 4
cefde4c7f92e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/lexicmap commit a9227295a4cebc34b17def7b5ca3e4506222b963
iuc
parents:
diff changeset
4 # LexicHash
cefde4c7f92e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/lexicmap commit a9227295a4cebc34b17def7b5ca3e4506222b963
iuc
parents:
diff changeset
5 max-K = 31
cefde4c7f92e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/lexicmap commit a9227295a4cebc34b17def7b5ca3e4506222b963
iuc
parents:
diff changeset
6 masks = 20000
cefde4c7f92e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/lexicmap commit a9227295a4cebc34b17def7b5ca3e4506222b963
iuc
parents:
diff changeset
7 rand-seed = 1
cefde4c7f92e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/lexicmap commit a9227295a4cebc34b17def7b5ca3e4506222b963
iuc
parents:
diff changeset
8 # Seed distance
cefde4c7f92e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/lexicmap commit a9227295a4cebc34b17def7b5ca3e4506222b963
iuc
parents:
diff changeset
9 max-seed-dist = 100
cefde4c7f92e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/lexicmap commit a9227295a4cebc34b17def7b5ca3e4506222b963
iuc
parents:
diff changeset
10 seed-dist-in-desert = 50
cefde4c7f92e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/lexicmap commit a9227295a4cebc34b17def7b5ca3e4506222b963
iuc
parents:
diff changeset
11 # Seeds (k-mer-value data) files
cefde4c7f92e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/lexicmap commit a9227295a4cebc34b17def7b5ca3e4506222b963
iuc
parents:
diff changeset
12 chunks = 2
cefde4c7f92e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/lexicmap commit a9227295a4cebc34b17def7b5ca3e4506222b963
iuc
parents:
diff changeset
13 index-partitions = 4096
cefde4c7f92e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/lexicmap commit a9227295a4cebc34b17def7b5ca3e4506222b963
iuc
parents:
diff changeset
14 # Input genomes
cefde4c7f92e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/lexicmap commit a9227295a4cebc34b17def7b5ca3e4506222b963
iuc
parents:
diff changeset
15 input-genomes = 1
cefde4c7f92e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/lexicmap commit a9227295a4cebc34b17def7b5ca3e4506222b963
iuc
parents:
diff changeset
16 # Input bases
cefde4c7f92e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/lexicmap commit a9227295a4cebc34b17def7b5ca3e4506222b963
iuc
parents:
diff changeset
17 input-bases = 14243
cefde4c7f92e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/lexicmap commit a9227295a4cebc34b17def7b5ca3e4506222b963
iuc
parents:
diff changeset
18 # Genome data.
cefde4c7f92e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/lexicmap commit a9227295a4cebc34b17def7b5ca3e4506222b963
iuc
parents:
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19 # 'genomes' might be larger than 'input-genomes', as some big fragmented genomes are split into multiple chunks.
cefde4c7f92e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/lexicmap commit a9227295a4cebc34b17def7b5ca3e4506222b963
iuc
parents:
diff changeset
20 # In this case, 'genome-batch-size' is not accurate, being variable in different batches.
cefde4c7f92e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/lexicmap commit a9227295a4cebc34b17def7b5ca3e4506222b963
iuc
parents:
diff changeset
21 genomes = 1
cefde4c7f92e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/lexicmap commit a9227295a4cebc34b17def7b5ca3e4506222b963
iuc
parents:
diff changeset
22 genome-batch-size = 1
cefde4c7f92e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/lexicmap commit a9227295a4cebc34b17def7b5ca3e4506222b963
iuc
parents:
diff changeset
23 genome-batches = 1
cefde4c7f92e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/lexicmap commit a9227295a4cebc34b17def7b5ca3e4506222b963
iuc
parents:
diff changeset
24 contig-interval = 1000