Mercurial > repos > iuc > data_manager_gtdbtk_database_installer

comparison data_manager/gtdbtk_database_installer.py @ 3:c4830a9870fa draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit 9f0b54aeff21df342d2593cff59e813b69cc7bad
author iuc
date Wed, 14 Aug 2024 18:02:46 +0000
parents 6ab422fba1a3
children 10232d2b5062
comparison
equal deleted inserted replaced
2:6ab422fba1a3 3:c4830a9870fa
13 13
14 # rather provide the urls based on the release, less error potential for the admins ! 14 # rather provide the urls based on the release, less error potential for the admins !
15 urls = { 15 urls = {
16 "202": { 16 "202": {
17 "full": "https://data.gtdb.ecogenomic.org/releases/release202/202.0/auxillary_files/gtdbtk_r202_data.tar.gz", 17 "full": "https://data.gtdb.ecogenomic.org/releases/release202/202.0/auxillary_files/gtdbtk_r202_data.tar.gz",
18 "meta_ar": "https://data.gtdb.ecogenomic.org/releases/release202/202.0/ar122_taxonomy_r202.tsv.gz", 18 "meta_ar": "https://data.gtdb.ecogenomic.org/releases/release202/202.0/ar122_metadata_r202.tar.gz",
19 "meta_bac": "https://data.gtdb.ecogenomic.org/releases/release202/202.0/bac120_taxonomy_r202.tsv.gz", 19 "meta_bac": "https://data.gtdb.ecogenomic.org/releases/release202/202.0/bac120_metadata_r202.tar.gz",
20 }, 20 },
21 "207": { 21 "207": {
22 "full": "https://data.gtdb.ecogenomic.org/releases/release207/207.0/auxillary_files/gtdbtk_r207_data.tar.gz", 22 "full": "https://data.gtdb.ecogenomic.org/releases/release207/207.0/auxillary_files/gtdbtk_r207_data.tar.gz",
23 "meta_ar": "https://data.gtdb.ecogenomic.org/releases/release207/207.0/ar53_taxonomy_r207.tsv.gz", 23 "meta_ar": "https://data.gtdb.ecogenomic.org/releases/release207/207.0/ar53_metadata_r207.tar.gz",
24 "meta_bac": "https://data.gtdb.ecogenomic.org/releases/release207/207.0/bac120_taxonomy_r207.tsv.gz", 24 "meta_bac": "https://data.gtdb.ecogenomic.org/releases/release207/207.0/bac120_metadata_r207.tar.gz",
25 }, 25 },
26 "214": { 26 "214": {
27 "full": "https://data.gtdb.ecogenomic.org/releases/release214/214.0/auxillary_files/gtdbtk_r214_data.tar.gz", 27 "full": "https://data.gtdb.ecogenomic.org/releases/release214/214.0/auxillary_files/gtdbtk_r214_data.tar.gz",
28 "meta_ar": "https://data.gtdb.ecogenomic.org/releases/release214/214.0/ar53_taxonomy_r214.tsv.gz", 28 "meta_ar": "https://data.gtdb.ecogenomic.org/releases/release214/214.1/ar53_metadata_r214.tsv.gz",
29 "meta_bac": "https://data.gtdb.ecogenomic.org/releases/release214/214.0/bac120_taxonomy_r214.tsv.gz", 29 "meta_bac": "https://data.gtdb.ecogenomic.org/releases/release214/214.1/bac120_metadata_r214.tsv.gz",
30 }, 30 },
31 "220": { 31 "220": {
32 "full": "https://data.gtdb.ecogenomic.org/releases/release220/220.0/auxillary_files/gtdbtk_package/full_package/gtdbtk_r220_data.tar.gz", 32 "full": "https://data.gtdb.ecogenomic.org/releases/release220/220.0/auxillary_files/gtdbtk_package/full_package/gtdbtk_r220_data.tar.gz",
33 "meta_ar": "https://data.gtdb.ecogenomic.org/releases/release220/220.0/ar53_taxonomy_r220.tsv.gz", 33 "meta_ar": "https://data.gtdb.ecogenomic.org/releases/release220/220.0/ar53_metadata_r220.tsv.gz",
34 "meta_bac": "https://data.gtdb.ecogenomic.org/releases/release220/220.0/bac120_taxonomy_r220.tsv.gz", 34 "meta_bac": "https://data.gtdb.ecogenomic.org/releases/release220/220.0/bac120_metadata_r220.tsv.gz",
35 }, 35 },
36 "test": { # using VERSION to check if files are there 36 "test": { # using VERSION to check if files are there
37 "full": "https://data.gtdb.ecogenomic.org/releases/release220/220.0/VERSION.txt", 37 "full": "https://data.gtdb.ecogenomic.org/releases/release220/220.0/VERSION.txt",
38 "meta_ar": "https://data.gtdb.ecogenomic.org/releases/release220/220.0/ar53_taxonomy_r220.tsv.gz", 38 "meta_ar": "https://data.gtdb.ecogenomic.org/releases/release220/220.0/ar53_metadata_r220.tsv.gz",
39 "meta_bac": "https://data.gtdb.ecogenomic.org/releases/release220/220.0/bac120_taxonomy_r220.tsv.gz", 39 "meta_bac": "https://data.gtdb.ecogenomic.org/releases/release220/220.0/bac120_metadata_r220.tsv.gz",
40 }, 40 },
41 } 41 }
42 42
43 43
44 def url_download(url, target_directory): 44 def url_download(url, target_directory):