2025-04-09

Author: pjhesbest

envs/conda/taxonomy_env.yml

@@ -3,7 +3,7 @@ channels:
   - bioconda
   - conda-forge
 dependencies:
-- bioconda::kraken2=2.14
-- bioconda::seqkit=2.9.0
+- bioconda::fastp=0.24.0
 - bioconda::fastq-pair=1.0
-- bioconda::fastp=0.24.0
+- bioconda::kraken2=2.14
+- bioconda::seqkit=2.10.0

envs/containers/docker.yml

@@ -5,12 +5,12 @@ phylogeny_env:
 r-phylogeny_env:
 - community.wave.seqera.io/library/bioconductor-ggtree_bioconductor-treeio_r-ape_r-argparse_pruned:eea7baf72f9560d9
 r-stats_env:
-- community.wave.seqera.io/library/r-argparse_r-base_r-dplyr_r-ggrepel_pruned:9fa710c1508e1cb6
+-
 snp_profiling_env:
 - community.wave.seqera.io/library/bcftools_emboss_seqkit_snp-sites_pruned:1a1022abcb91db63
 taxonkit_env:
-- 
+- community.wave.seqera.io/library/taxonkit:0.19.0--e60eeab4ec1369bc
 taxonomy_env:
-- 
+- community.wave.seqera.io/library/fastp_fastq-pair_kraken2_seqkit:8303c343b1f28ce5
 tbprofiler_env:
-- community.wave.seqera.io/library/tb-profiler:6.6.3--fb34c34b4a27d1b8
+- community.wave.seqera.io/library/tb-profiler:6.6.3--fb34c34b4a27d1b8

envs/containers/singulairty.yml

@@ -8,17 +8,17 @@ r-phylogeny_env:
 - oras://community.wave.seqera.io/library/bioconductor-ggtree_bioconductor-treeio_r-ape_r-argparse_pruned:3933fdc29e2b7516
 - https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/3a/3a292e33635c69a2545fd6842116f83f1ae86066444339706cc6b1cdd02558ca/data
 r-stats_env:
+- oras://community.wave.seqera.io/library/r-argparse_r-base_r-dplyr_r-ggrepel_pruned:da7ce77d44de8dae
 - 
--
 snp_profiling_env:
-- 
-- 
+- oras://community.wave.seqera.io/library/bcftools_emboss_seqkit_snp-sites_pruned:8fe1733ce51eacc9
+- https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/db/db3337ec6f003d7a5f87d110704d2fa8d0440cf2c86fdae86317ed956a87eb74/data
 taxonkit_env:
-- 
-- 
+- oras://community.wave.seqera.io/library/taxonkit:0.19.0--e76d81040c656441
+- https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/45/45b2a6f7d0ff69e3034d19cfa2ad501228352c48f388a5bfd1ef83b8cf8679e1/data
 taxonomy_env:
-- 
-- 
+- oras://community.wave.seqera.io/library/fastp_fastq-pair_kraken2_seqkit:2acc99681389f100
+- https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/b8/b8b5382a9284e8ee8b145cb098f01d021f0224bd804bd9b3209628d371226d6e/data
 tbprofiler_env:
 - oras://community.wave.seqera.io/library/tb-profiler:6.6.3--400be6f998a9ed1b
 - https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/1c/1c8630f93dc3f64b11a2ff508d950a3e06c4e33e949476ed2b475beb8cafd1c9/data