From 1eb1a3f021a02d25a873e0cb975f5248b52bf7c4 Mon Sep 17 00:00:00 2001
From: BiocondaBot <47040946+BiocondaBot@users.noreply.github.com>
Date: Mon, 21 Oct 2024 06:04:45 +0000
Subject: [PATCH 1/3] Update bustools to 0.44.1

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

diff --git a/recipes/bustools/meta.yaml b/recipes/bustools/meta.yaml
index fed8ae7701f0b..86aad2e1a0f7b 100644
--- a/recipes/bustools/meta.yaml
+++ b/recipes/bustools/meta.yaml
@@ -1,4 +1,4 @@
-{% set version = "0.44.0" %}
+{% set version = "0.44.1" %}
 
 package:
   name: bustools
@@ -6,7 +6,7 @@ package:
 
 source:
   url: https://github.com/BUStools/bustools/archive/v{{ version }}.tar.gz
-  sha256: e9a12be416d5d3940dd0ec3bfb0be3a481f2eea7d4411df1ab24c814332d99b8
+  sha256: 829d7ca129b4c4911cae35bc2b87cac5d3a7845387b9a6487765aec84108d732
 
 build:
   number: 0

From 9e6ac5a9ca3411d26363042cc14f367df3607b9e Mon Sep 17 00:00:00 2001
From: mencian <joshua.zhuang@yahoo.com>
Date: Mon, 21 Oct 2024 01:13:37 -0500
Subject: [PATCH 2/3] clean up recipe

---
 recipes/bustools/build.sh  | 23 +++++++++++++++++------
 recipes/bustools/meta.yaml |  9 +++++++--
 2 files changed, 24 insertions(+), 8 deletions(-)

diff --git a/recipes/bustools/build.sh b/recipes/bustools/build.sh
index 93f63cbb3280d..e8c29bbb069bd 100644
--- a/recipes/bustools/build.sh
+++ b/recipes/bustools/build.sh
@@ -1,10 +1,21 @@
 #!/bin/bash
 set -euo pipefail
 
-export CPATH=$PREFIX/include
+export INCLUDE_PATH=$PREFIX/include
+export LIBRARY_PATH=$PREFIX/lib
+export LDFLAGS="${LDFLAGS} -L$PREFIX/lib"
+export CXXFLAGS="${CXXFLAGS} -std=c++14 -O3 -I${PREFIX}/include"
 
-mkdir build
-cd build 
-cmake -DCMAKE_INSTALL_PREFIX:PATH=$PREFIX ..
-make 
-make install
+if [[ `uname` == "Darwin" ]]; then
+	export CONFIG_ARGS="-DCMAKE_FIND_FRAMEWORK=NEVER -DCMAKE_FIND_APPBUNDLE=NEVER"
+else
+	export CONFIG_ARGS=""
+fi
+ 
+cmake -S. -B build -DCMAKE_INSTALL_PREFIX="${PREFIX}" \
+	-DCMAKE_BUILD_TYPE=Release -DCMAKE_CXX_COMPILER="${CXX}" \
+	-DCMAKE_CXX_FLAGS="${CXXFLAGS}" -DCMAKE_C_COMPILER="${CC}" \
+	-DCMAKE_C_FLAGS="${CFLAGS} -O3" \
+	"${CONFIG_ARGS}"
+
+cmake --build build --target install -v
diff --git a/recipes/bustools/meta.yaml b/recipes/bustools/meta.yaml
index 86aad2e1a0f7b..7e114c40dd6d9 100644
--- a/recipes/bustools/meta.yaml
+++ b/recipes/bustools/meta.yaml
@@ -27,14 +27,19 @@ test:
     - bustools sort
 
 about:
-  home: https://github.com/BUStools/bustools
-  license: BSD-2-Clause "Simplified" License
+  home: "https://github.com/BUStools/bustools"
+  license: 'BSD-2-Clause "Simplified" License'
   license_family: BSD
   license_file: LICENSE
   summary: |
     bustools is a program for manipulating BUS files for single cell RNA-Seq datasets.
+  dev_url: "https://github.com/BUStools/bustools"
+  doc_url: "https://bustools.github.io/manual"
 
 extra:
   additional-platforms:
     - linux-aarch64
     - osx-arm64
+  identifiers:
+    - biotools:BUStools
+    - doi:10.1038/s41587-021-00870-2

From 2bf19ccd1bd9ea566ba9cab11bbe301b196854f2 Mon Sep 17 00:00:00 2001
From: mencian <joshua.zhuang@yahoo.com>
Date: Mon, 21 Oct 2024 01:26:20 -0500
Subject: [PATCH 3/3] revert to CPATH

---
 recipes/bustools/build.sh | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/recipes/bustools/build.sh b/recipes/bustools/build.sh
index e8c29bbb069bd..cbd3af5c9a2da 100644
--- a/recipes/bustools/build.sh
+++ b/recipes/bustools/build.sh
@@ -1,8 +1,8 @@
 #!/bin/bash
 set -euo pipefail
 
-export INCLUDE_PATH=$PREFIX/include
-export LIBRARY_PATH=$PREFIX/lib
+export CPATH="${PREFIX}/include"
+export LIBRARY_PATH="${PREFIX}/lib"
 export LDFLAGS="${LDFLAGS} -L$PREFIX/lib"
 export CXXFLAGS="${CXXFLAGS} -std=c++14 -O3 -I${PREFIX}/include"