From 0fff2ffcd2ae7523ba6c8d9cff2723a9cd5484c8 Mon Sep 17 00:00:00 2001
From: BiocondaBot <47040946+BiocondaBot@users.noreply.github.com>
Date: Thu, 14 Nov 2024 16:06:45 +0000
Subject: [PATCH 1/3] Update bakta to 1.10.0

---
 recipes/bakta/meta.yaml | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/recipes/bakta/meta.yaml b/recipes/bakta/meta.yaml
index fa02ae9c72a68..8dc172996f49e 100644
--- a/recipes/bakta/meta.yaml
+++ b/recipes/bakta/meta.yaml
@@ -1,4 +1,4 @@
-{% set version = "1.9.4" %}
+{% set version = "1.10.0" %}
 
 package:
   name: bakta
@@ -6,7 +6,7 @@ package:
 
 source:
   url: https://github.com/oschwengers/bakta/archive/v{{ version }}.tar.gz
-  sha256: 'ad92853e9d4f022024d393149eb086ad36a7e35f824a5d9efed94c3262f9cf66'
+  sha256: '78f98ead47b45ad5fe66a41be369be72cac36dff6d68073d285c568dc860be98'
 
 build:
   noarch: python

From 0bb7e5e5caa5b82be67973eaf2ca684ddfb5d5b7 Mon Sep 17 00:00:00 2001
From: Oliver Schwengers <oliver.schwengers@computational.bio.uni-giessen.de>
Date: Thu, 14 Nov 2024 17:32:50 +0100
Subject: [PATCH 2/3] update Bakta dependencies and tests

---
 recipes/bakta/meta.yaml | 22 +++++++++++++---------
 1 file changed, 13 insertions(+), 9 deletions(-)

diff --git a/recipes/bakta/meta.yaml b/recipes/bakta/meta.yaml
index 8dc172996f49e..7f34e8898b2f4 100644
--- a/recipes/bakta/meta.yaml
+++ b/recipes/bakta/meta.yaml
@@ -10,45 +10,49 @@ source:
 
 build:
   noarch: python
-  number: 0
+  number: 1
   script: python -m pip install --no-deps --ignore-installed .
   entry_points:
     - bakta = bakta.main:main
     - bakta_proteins = bakta.proteins:main
     - bakta_db = bakta.db:main
     - bakta_plot = bakta.plot:main
+    - bakta_io = bakta.json_io:main
   run_exports:
     - {{ pin_subpackage('bakta', max_pin='x.x') }}
 
 requirements:
   host:
-    - python >=3.8, <3.11
+    - python >=3.9, <3.12
     - pip
   run:
-    - python >=3.8, <3.11
+    - python >=3.9, <3.12
     - biopython >=1.78
     - xopen >=1.5.0
     - requests >=2.25.1
     - alive-progress ==3.0.1
     - pyyaml >=6.0
-    - pyrodigal >=3.1.0
+    - pyrodigal >=3.5.0
     - trnascan-se >=2.0.11
     - aragorn >=1.2.41
     - infernal >=1.1.4
     - piler-cr
-    - pyhmmer >=0.10.4
-    - diamond ==2.1.8
+    - pyhmmer >=0.10.15
+    - diamond >=2.1.10
     - blast >=2.14.0
-    - ncbi-amrfinderplus >=3.11.26
-    - circos >=0.69.8
+    - ncbi-amrfinderplus >=4.0.3
+    - pycirclize >=1.7.0
 
 test:
   import:
     - Bio.SeqIO
     - xopen.xopen
-    - pyrodigal
     - requests
     - alive_progress
+    - pyyaml
+    - pyrodigal
+    - pyhmmer
+    - pycirclize
   commands:
     - bakta --help
 

From c16554215a6db2547efa4d13f2d39c619bfc8dfe Mon Sep 17 00:00:00 2001
From: Oliver Schwengers <oliver.schwengers@computational.bio.uni-giessen.de>
Date: Thu, 14 Nov 2024 17:46:17 +0100
Subject: [PATCH 3/3] reset build number

---
 recipes/bakta/meta.yaml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/recipes/bakta/meta.yaml b/recipes/bakta/meta.yaml
index 7f34e8898b2f4..f99b0be766124 100644
--- a/recipes/bakta/meta.yaml
+++ b/recipes/bakta/meta.yaml
@@ -10,7 +10,7 @@ source:
 
 build:
   noarch: python
-  number: 1
+  number: 0
   script: python -m pip install --no-deps --ignore-installed .
   entry_points:
     - bakta = bakta.main:main