From d40401edd982dcc3696c0f081327546d63907480 Mon Sep 17 00:00:00 2001
From: Fawaz Dabbaghie <fawaz.dabbaghieh@gmail.com>
Date: Mon, 4 Nov 2024 12:52:11 +0100
Subject: [PATCH 1/4] adding bubblegun recipe

---
 recipes/bubblegun/meta.yaml | 39 +++++++++++++++++++++++++++++++++++++
 1 file changed, 39 insertions(+)
 create mode 100644 recipes/bubblegun/meta.yaml

diff --git a/recipes/bubblegun/meta.yaml b/recipes/bubblegun/meta.yaml
new file mode 100644
index 0000000000000..21f5e43ee7841
--- /dev/null
+++ b/recipes/bubblegun/meta.yaml
@@ -0,0 +1,39 @@
+{% set name = "BubbleGun" %}
+{% set version = "1.1.8" %}
+
+package:
+  name: {{ name|lower }}
+  version: {{ version }}
+
+source:
+  url: "https://github.com/fawaz-dabbaghieh/bubble_gun/archive/refs/tags/v1.1.9.tar.gz"
+  sha256: 005d61a1e5774dfec810e612c1b4c5ce6c8d15f80d131237590ef71f62704c94
+
+
+build:
+  number: 0
+  noarch: python
+  script: {{ PYTHON }} -m pip install . --no-deps --ignore-installed -vv
+  run_exports:
+    - {{ pin_compatible('BubbleGun', max_pin="x") }}
+  
+requirements:
+  host:
+    - python >=3.6
+    - pip
+    - setuptools
+  run:
+    - python
+
+test:
+  commands:
+    - BubbleGun -h
+
+about:
+  home: "https://github.com/fawaz-dabbaghieh/bubble_gun"
+  license: MIT
+  license_family: MIT
+  license_file: LICENSE
+  summary: 'BubbleGun is a tool for detecting bubbles and superbubbles in GFA graphs, and reports them and their nested structures'
+  doc_url: "https://github.com/fawaz-dabbaghieh/bubble_gun/blob/master/README.md"
+  def_url: "https://github.com/fawaz-dabbaghieh"

From 90a0e29ead1ec75bb4516b98b37f8617c77bdde8 Mon Sep 17 00:00:00 2001
From: Fawaz Dabbaghie <fawaz.dabbaghieh@gmail.com>
Date: Mon, 4 Nov 2024 13:28:00 +0100
Subject: [PATCH 2/4] adding some fixes to what coderabbit suggested

---
 recipes/bubblegun/meta.yaml | 8 +++-----
 1 file changed, 3 insertions(+), 5 deletions(-)

diff --git a/recipes/bubblegun/meta.yaml b/recipes/bubblegun/meta.yaml
index 21f5e43ee7841..7dac14b682a67 100644
--- a/recipes/bubblegun/meta.yaml
+++ b/recipes/bubblegun/meta.yaml
@@ -1,5 +1,5 @@
 {% set name = "BubbleGun" %}
-{% set version = "1.1.8" %}
+{% set version = "1.1.9" %}
 
 package:
   name: {{ name|lower }}
@@ -14,8 +14,6 @@ build:
   number: 0
   noarch: python
   script: {{ PYTHON }} -m pip install . --no-deps --ignore-installed -vv
-  run_exports:
-    - {{ pin_compatible('BubbleGun', max_pin="x") }}
   
 requirements:
   host:
@@ -23,7 +21,7 @@ requirements:
     - pip
     - setuptools
   run:
-    - python
+    - python >=3.6
 
 test:
   commands:
@@ -36,4 +34,4 @@ about:
   license_file: LICENSE
   summary: 'BubbleGun is a tool for detecting bubbles and superbubbles in GFA graphs, and reports them and their nested structures'
   doc_url: "https://github.com/fawaz-dabbaghieh/bubble_gun/blob/master/README.md"
-  def_url: "https://github.com/fawaz-dabbaghieh"
+  dev_url: "https://github.com/fawaz-dabbaghieh"

From 40696b80b0dfc924296968802380db0660749398 Mon Sep 17 00:00:00 2001
From: Fawaz Dabbaghie <fawaz.dabbaghieh@gmail.com>
Date: Mon, 4 Nov 2024 15:56:48 +0100
Subject: [PATCH 3/4] adding back the run_export that coderabbitair
 specifically suggested to remove -_-

---
 recipes/bubblegun/meta.yaml | 4 +++-
 1 file changed, 3 insertions(+), 1 deletion(-)

diff --git a/recipes/bubblegun/meta.yaml b/recipes/bubblegun/meta.yaml
index 7dac14b682a67..71dbc03ae2627 100644
--- a/recipes/bubblegun/meta.yaml
+++ b/recipes/bubblegun/meta.yaml
@@ -14,7 +14,9 @@ build:
   number: 0
   noarch: python
   script: {{ PYTHON }} -m pip install . --no-deps --ignore-installed -vv
-  
+  run_exports:
+    - {{ pin_compatible('BubbleGun', max_pin="x") }}
+    
 requirements:
   host:
     - python >=3.6

From 6394cbb8826dffd9309203c142bb06441360e1dd Mon Sep 17 00:00:00 2001
From: Joshua Zhuang <71105179+mencian@users.noreply.github.com>
Date: Mon, 4 Nov 2024 19:30:22 -0600
Subject: [PATCH 4/4] Update meta.yaml

---
 recipes/bubblegun/meta.yaml | 11 ++++++-----
 1 file changed, 6 insertions(+), 5 deletions(-)

diff --git a/recipes/bubblegun/meta.yaml b/recipes/bubblegun/meta.yaml
index 71dbc03ae2627..a97e641474c57 100644
--- a/recipes/bubblegun/meta.yaml
+++ b/recipes/bubblegun/meta.yaml
@@ -6,14 +6,15 @@ package:
   version: {{ version }}
 
 source:
-  url: "https://github.com/fawaz-dabbaghieh/bubble_gun/archive/refs/tags/v1.1.9.tar.gz"
+  url: "https://github.com/fawaz-dabbaghieh/bubble_gun/archive/refs/tags/v{{ version }}.tar.gz"
   sha256: 005d61a1e5774dfec810e612c1b4c5ce6c8d15f80d131237590ef71f62704c94
 
-
 build:
   number: 0
   noarch: python
-  script: {{ PYTHON }} -m pip install . --no-deps --ignore-installed -vv
+  entry_points:
+    - BubbleGun=BubbleGun.main:main
+  script: {{ PYTHON }} -m pip install . --no-deps --no-build-isolation --no-cache-dir -vvv
   run_exports:
     - {{ pin_compatible('BubbleGun', max_pin="x") }}
     
@@ -34,6 +35,6 @@ about:
   license: MIT
   license_family: MIT
   license_file: LICENSE
-  summary: 'BubbleGun is a tool for detecting bubbles and superbubbles in GFA graphs, and reports them and their nested structures'
-  doc_url: "https://github.com/fawaz-dabbaghieh/bubble_gun/blob/master/README.md"
+  summary: 'BubbleGun is a tool for detecting bubbles and superbubbles in GFA graphs, and reports them and their nested structures.'
+  doc_url: "https://github.com/fawaz-dabbaghieh/bubble_gun/blob/v{{ version }}/README.md"
   dev_url: "https://github.com/fawaz-dabbaghieh"