From dd1c9b921c0b7bb1eb40d126cdaa94a13c9824ca Mon Sep 17 00:00:00 2001 From: LiuHualin Date: Tue, 16 Jun 2020 09:07:11 +0800 Subject: [PATCH 01/10] Update pgcgap to v1.0.18 --- recipes/pgcgap/meta.yaml | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/recipes/pgcgap/meta.yaml b/recipes/pgcgap/meta.yaml index 4db395af4a05a..4f61a0953c1cb 100644 --- a/recipes/pgcgap/meta.yaml +++ b/recipes/pgcgap/meta.yaml @@ -1,5 +1,5 @@ {% set name = "pgcgap" %} -{% set version = "1.0.17" %} +{% set version = "1.0.18" %} package: name: '{{ name }}' @@ -7,7 +7,7 @@ package: source: url: https://github.com/liaochenlanruo/pgcgap/archive/v{{ version }}.tar.gz - sha256: b4a57daed31ce3cd781e3f4687bb5a896b01bb83172ab844edac9ad9f34e3947 + sha256: d70c59635da62ef3ba57d7b0f1e07ca3be67388aa6c16930104714e5adac6ff0 build: number: 0 From c9db41883c16bc4d1468fb47c276752e514d2809 Mon Sep 17 00:00:00 2001 From: Devon Ryan Date: Tue, 16 Jun 2020 22:55:16 +0200 Subject: [PATCH 02/10] Update meta.yaml --- recipes/pgcgap/meta.yaml | 6 ++++-- 1 file changed, 4 insertions(+), 2 deletions(-) diff --git a/recipes/pgcgap/meta.yaml b/recipes/pgcgap/meta.yaml index 4f61a0953c1cb..361b0067040b3 100644 --- a/recipes/pgcgap/meta.yaml +++ b/recipes/pgcgap/meta.yaml @@ -56,9 +56,11 @@ requirements: - htslib >=1.9 - snippy >=4.3.6 - sickle-trim >=1.33 - - r-ggplot2 =3.1.1 + - r-base + - r-ggplot2 3.1.1 - r-gplots - r-corrplot + - python - matplotlib-base - scoary - seaborn @@ -67,7 +69,7 @@ requirements: - biopython - r-pheatmap - r-plotrix - - unicycler =0.4.7 + - unicycler 0.4.7 - wget - coreutils From 44c64cbab548f30db49d7e7ffcabd927547c037b Mon Sep 17 00:00:00 2001 From: Devon Ryan Date: Tue, 16 Jun 2020 23:51:52 +0200 Subject: [PATCH 03/10] Debug why there are python host dependencies getting pulled in --- recipes/pgcgap/meta.yaml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/recipes/pgcgap/meta.yaml b/recipes/pgcgap/meta.yaml index 361b0067040b3..ba89e1b3a432e 100644 --- a/recipes/pgcgap/meta.yaml +++ b/recipes/pgcgap/meta.yaml @@ -16,7 +16,7 @@ build: requirements: host: - perl - - perl-bioperl >=1.7.2 + #- perl-bioperl >=1.7.2 - perl-file-tee - perl-sys-info From ab695e16315c03f8c6225317b278741270cb507a Mon Sep 17 00:00:00 2001 From: Devon Ryan Date: Wed, 17 Jun 2020 23:03:19 +0200 Subject: [PATCH 04/10] Update meta.yaml --- recipes/pgcgap/meta.yaml | 36 ++++++++++++++++++------------------ 1 file changed, 18 insertions(+), 18 deletions(-) diff --git a/recipes/pgcgap/meta.yaml b/recipes/pgcgap/meta.yaml index ba89e1b3a432e..75443bd5263cb 100644 --- a/recipes/pgcgap/meta.yaml +++ b/recipes/pgcgap/meta.yaml @@ -16,10 +16,9 @@ build: requirements: host: - perl - #- perl-bioperl >=1.7.2 + - perl-bioperl >=1.7.2 - perl-file-tee - perl-sys-info - run: - abricate - canu >=1.8 @@ -46,6 +45,7 @@ requirements: - fastani >=1.1 - fastp - pal2nal + - perl - perl-file-tee - perl-data-dumper >=2.173 - perl-pod-usage >=1.69 @@ -56,22 +56,22 @@ requirements: - htslib >=1.9 - snippy >=4.3.6 - sickle-trim >=1.33 - - r-base - - r-ggplot2 3.1.1 - - r-gplots - - r-corrplot - - python - - matplotlib-base - - scoary - - seaborn - - numpy - - pandas - - biopython - - r-pheatmap - - r-plotrix - - unicycler 0.4.7 - - wget - - coreutils + #- r-base + #- r-ggplot2 3.1.1 + #- r-gplots + #- r-corrplot + #- python + #- matplotlib-base + #- scoary + #- seaborn + #- numpy + #- pandas + #- biopython + #- r-pheatmap + #- r-plotrix + #- unicycler 0.4.7 + #- wget + #- coreutils test: commands: From aa19180555d6afcc1948ea1a6d7c3ef9e017c81a Mon Sep 17 00:00:00 2001 From: Devon Ryan Date: Wed, 17 Jun 2020 23:35:31 +0200 Subject: [PATCH 05/10] Update meta.yaml --- recipes/pgcgap/meta.yaml | 12 ++++++------ 1 file changed, 6 insertions(+), 6 deletions(-) diff --git a/recipes/pgcgap/meta.yaml b/recipes/pgcgap/meta.yaml index 75443bd5263cb..e0969db5d33ff 100644 --- a/recipes/pgcgap/meta.yaml +++ b/recipes/pgcgap/meta.yaml @@ -56,10 +56,10 @@ requirements: - htslib >=1.9 - snippy >=4.3.6 - sickle-trim >=1.33 - #- r-base - #- r-ggplot2 3.1.1 - #- r-gplots - #- r-corrplot + - r-base + - r-ggplot2 3.1.1 + - r-gplots + - r-corrplot #- python #- matplotlib-base #- scoary @@ -67,8 +67,8 @@ requirements: #- numpy #- pandas #- biopython - #- r-pheatmap - #- r-plotrix + - r-pheatmap + - r-plotrix #- unicycler 0.4.7 #- wget #- coreutils From 8641bb97d6220e20c7748d7944ce0f86270b8054 Mon Sep 17 00:00:00 2001 From: Devon Ryan Date: Thu, 18 Jun 2020 00:26:12 +0200 Subject: [PATCH 06/10] Update meta.yaml --- recipes/pgcgap/meta.yaml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/recipes/pgcgap/meta.yaml b/recipes/pgcgap/meta.yaml index e0969db5d33ff..108e0867bddd8 100644 --- a/recipes/pgcgap/meta.yaml +++ b/recipes/pgcgap/meta.yaml @@ -57,7 +57,7 @@ requirements: - snippy >=4.3.6 - sickle-trim >=1.33 - r-base - - r-ggplot2 3.1.1 + #- r-ggplot2 3.1.1 - r-gplots - r-corrplot #- python From f00f3a8d4af2b8f80442abf86db1e709e934f652 Mon Sep 17 00:00:00 2001 From: Devon Ryan Date: Thu, 18 Jun 2020 23:16:13 +0200 Subject: [PATCH 07/10] Update meta.yaml --- recipes/pgcgap/meta.yaml | 14 +++++++------- 1 file changed, 7 insertions(+), 7 deletions(-) diff --git a/recipes/pgcgap/meta.yaml b/recipes/pgcgap/meta.yaml index 108e0867bddd8..9fc8bbdfb7f18 100644 --- a/recipes/pgcgap/meta.yaml +++ b/recipes/pgcgap/meta.yaml @@ -60,18 +60,18 @@ requirements: #- r-ggplot2 3.1.1 - r-gplots - r-corrplot - #- python - #- matplotlib-base + - python + - matplotlib-base #- scoary - #- seaborn - #- numpy - #- pandas + - seaborn + - numpy + - pandas #- biopython - r-pheatmap - r-plotrix #- unicycler 0.4.7 - #- wget - #- coreutils + - wget + - coreutils test: commands: From 4585f2552978947c0f4b565642a291411a7c5bea Mon Sep 17 00:00:00 2001 From: Devon Ryan Date: Fri, 19 Jun 2020 07:31:18 +0200 Subject: [PATCH 08/10] Update meta.yaml --- recipes/pgcgap/meta.yaml | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/recipes/pgcgap/meta.yaml b/recipes/pgcgap/meta.yaml index 9fc8bbdfb7f18..8f17b46f0127c 100644 --- a/recipes/pgcgap/meta.yaml +++ b/recipes/pgcgap/meta.yaml @@ -62,14 +62,14 @@ requirements: - r-corrplot - python - matplotlib-base - #- scoary + - scoary - seaborn - numpy - pandas #- biopython - r-pheatmap - r-plotrix - #- unicycler 0.4.7 + - unicycler 0.4.7 - wget - coreutils From 3ad8e78fcd76563e119436f9bb0b1b5e3b7de62b Mon Sep 17 00:00:00 2001 From: Devon Ryan Date: Fri, 19 Jun 2020 19:30:45 +0200 Subject: [PATCH 09/10] Update meta.yaml --- recipes/pgcgap/meta.yaml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/recipes/pgcgap/meta.yaml b/recipes/pgcgap/meta.yaml index 8f17b46f0127c..a79c51994bd45 100644 --- a/recipes/pgcgap/meta.yaml +++ b/recipes/pgcgap/meta.yaml @@ -57,7 +57,7 @@ requirements: - snippy >=4.3.6 - sickle-trim >=1.33 - r-base - #- r-ggplot2 3.1.1 + - r-ggplot2 >=3.1.1 - r-gplots - r-corrplot - python From a94acbf738d8216a4af7c021ab70b64dd15bd566 Mon Sep 17 00:00:00 2001 From: Devon Ryan Date: Fri, 19 Jun 2020 22:39:21 +0200 Subject: [PATCH 10/10] Update meta.yaml --- recipes/pgcgap/meta.yaml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/recipes/pgcgap/meta.yaml b/recipes/pgcgap/meta.yaml index a79c51994bd45..80d4df9328a65 100644 --- a/recipes/pgcgap/meta.yaml +++ b/recipes/pgcgap/meta.yaml @@ -66,7 +66,7 @@ requirements: - seaborn - numpy - pandas - #- biopython + - biopython - r-pheatmap - r-plotrix - unicycler 0.4.7