From 720108da97ee904f554e018e4519bc03b94f9656 Mon Sep 17 00:00:00 2001
From: d33bs <dave.bunten@cuanschutz.edu>
Date: Fri, 17 May 2024 09:43:27 -0600
Subject: [PATCH] update name to coSMicQC

---
 .github/ISSUE_TEMPLATE/issue.yml       |  4 ++--
 .github/PULL_REQUEST_TEMPLATE.md       |  2 +-
 CITATION.cff                           |  6 +++---
 CODE_OF_CONDUCT.md                     |  2 +-
 CONTRIBUTING.md                        |  4 ++--
 README.md                              |  4 ++--
 pyproject.toml                         | 10 +++++-----
 src/{sculptqc => cosmicqc}/__init__.py |  2 +-
 src/{sculptqc => cosmicqc}/analyze.py  |  0
 tests/test_analyze.py                  |  4 ++--
 10 files changed, 19 insertions(+), 19 deletions(-)
 rename src/{sculptqc => cosmicqc}/__init__.py (80%)
 rename src/{sculptqc => cosmicqc}/analyze.py (100%)

diff --git a/.github/ISSUE_TEMPLATE/issue.yml b/.github/ISSUE_TEMPLATE/issue.yml
index 2322775..fc71fc7 100644
--- a/.github/ISSUE_TEMPLATE/issue.yml
+++ b/.github/ISSUE_TEMPLATE/issue.yml
@@ -10,14 +10,14 @@ body:
       label: Is this a duplicate of an existing idea for this project?
       description: >
         Please make sure to search in the
-        [issues](https://github.com/WayScience/SCupltQC/issues) first
+        [issues](https://github.com/WayScience/coSMicQC/issues) first
         to see whether the same issue was reported already.
         If you find an existing issue, please don't hesitate to comment
         on it or add a reaction to existing content!
       options:
         - label: >
             I found no existing
-            [issues](https://github.com/WayScience/SCupltQC/issues)
+            [issues](https://github.com/WayScience/coSMicQC/issues)
             covering this topic.
           required: true
 
diff --git a/.github/PULL_REQUEST_TEMPLATE.md b/.github/PULL_REQUEST_TEMPLATE.md
index 4e9098c..1aef96d 100644
--- a/.github/PULL_REQUEST_TEMPLATE.md
+++ b/.github/PULL_REQUEST_TEMPLATE.md
@@ -4,7 +4,7 @@ _referenced with modifications from [pycytominer](https://github.com/cytomining/
 # Description
 
 <!--
-Thank you so much for your contribution to SCulptQC!
+Thank you so much for your contribution to coSMicQC!
 
 Please _succinctly_ summarize your proposed change.
 Namely, consider addressing the following questions:
diff --git a/CITATION.cff b/CITATION.cff
index 66ffd3a..a953949 100644
--- a/CITATION.cff
+++ b/CITATION.cff
@@ -2,7 +2,7 @@
 # Visit https://bit.ly/cffinit to generate yours today!
 ---
 cff-version: 1.2.0
-title: CytoTable
+title: coSMicQC
 message: >-
   If you use this software, please cite it using the
   metadata from this file.
@@ -17,9 +17,9 @@ authors:
   - given-names: Gregory
     family-names: Way
     orcid: 'https://orcid.org/0000-0002-0503-9348'
-repository-code: 'https://github.com/WayScience/SCupltQC'
+repository-code: 'https://github.com/WayScience/coSMicQC'
 abstract: >-
-  SCulptQC is a software tool for single-cell quality control of morphology datasets.
+  coSMicQC is a software tool for single-cell quality control of morphology datasets.
 keywords:
   - python
   - single-cell-analysis
diff --git a/CODE_OF_CONDUCT.md b/CODE_OF_CONDUCT.md
index 3145802..77ea94d 100644
--- a/CODE_OF_CONDUCT.md
+++ b/CODE_OF_CONDUCT.md
@@ -60,7 +60,7 @@ representative at an online or offline event.
 
 Instances of abusive, harassing, or otherwise unacceptable behavior may be
 reported to community leaders responsible for enforcement.
-Please open a [new security advisory notice](https://github.com/WayScience/SCupltQC/security/advisories/new) (using defaults or "n/a" where unable to fill in the form) to privately notify us of any incidents of this nature.
+Please open a [new security advisory notice](https://github.com/WayScience/coSMicQC/security/advisories/new) (using defaults or "n/a" where unable to fill in the form) to privately notify us of any incidents of this nature.
 All complaints will be reviewed and investigated promptly and fairly.
 
 All community leaders are obligated to respect the privacy and security of the
diff --git a/CONTRIBUTING.md b/CONTRIBUTING.md
index 7a39e02..8ee8d92 100644
--- a/CONTRIBUTING.md
+++ b/CONTRIBUTING.md
@@ -11,7 +11,7 @@ If you are stuck, please feel free to ask any questions or ask for help.
 This project is governed by our [code of conduct](CODE_OF_CONDUCT.md). By participating, you are expected to uphold this code.
 Instances of abusive, harassing, or otherwise unacceptable behavior may be
 reported to community leaders responsible for enforcement.
-Please open a [new security advisory notice](https://github.com/WayScience/SCupltQC/security/advisories/new) (using defaults or "n/a" where unable to fill in the form) to privately notify us of any incidents of this nature.
+Please open a [new security advisory notice](https://github.com/WayScience/coSMicQC/security/advisories/new) (using defaults or "n/a" where unable to fill in the form) to privately notify us of any incidents of this nature.
 
 ## Development
 
@@ -59,7 +59,7 @@ We welcome anyone to use [GitHub issues](https://docs.github.com/en/issues/track
 
 Specifically, there are several ways to suggest or make changes to this repository:
 
-1. Open a GitHub issue: https://github.com/WayScience/SCupltQC/issues
+1. Open a GitHub issue: https://github.com/WayScience/coSMicQC/issues
 1. Create a pull request from a forked branch of the repository
 
 ### Creating a pull request
diff --git a/README.md b/README.md
index 0e8c901..78d449d 100644
--- a/README.md
+++ b/README.md
@@ -1,3 +1,3 @@
-# SCupltQC
+# coSMicQC
 
-SCulptQC is a software tool for single-cell quality control of morphology datasets.
+coSMicQC is a software tool for single-cell quality control of morphology datasets.
diff --git a/pyproject.toml b/pyproject.toml
index 1d8f262..8f59353 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,11 +1,11 @@
 [tool.poetry]
-name = "SCulptQC"
+name = "coSMicQC"
 version = "0.0.1"
-description = "SCulptQC is a software tool for single-cell quality control of morphology datasets."
+description = "coSMicQC is a software tool for single-cell quality control of morphology datasets."
 authors = ["Way Science Community"]
 license = "BSD-3-Clause"
 readme = "README.md"
-packages = [{include = "sculptqc", from = "src"}]
+packages = [{include = "cosmicqc", from = "src"}]
 
 [tool.poetry.dependencies]
 python = ">=3.9,<3.13"
@@ -61,11 +61,11 @@ vcs = "git"
 
 # specify where version replacement is performed
 [tool.poetry-dynamic-versioning.substitution]
-files = ["src/sculptqc/__init__.py"]
+files = ["src/cosmicqc/__init__.py"]
 
 # set persistent versions within the __init__.py file in cases
 # where we may not have or want access to full git history
-[tool.poetry-dynamic-versioning.files."src/sculptqc/__init__.py"]
+[tool.poetry-dynamic-versioning.files."src/cosmicqc/__init__.py"]
 persistent-substitution = true
 
 [build-system]
diff --git a/src/sculptqc/__init__.py b/src/cosmicqc/__init__.py
similarity index 80%
rename from src/sculptqc/__init__.py
rename to src/cosmicqc/__init__.py
index 43f42fd..aca6bd8 100644
--- a/src/sculptqc/__init__.py
+++ b/src/cosmicqc/__init__.py
@@ -1,5 +1,5 @@
 """
-Initialization for scupltqc package
+Initialization for cosmicqc package
 """
 
 from .analyze import find_outliers
diff --git a/src/sculptqc/analyze.py b/src/cosmicqc/analyze.py
similarity index 100%
rename from src/sculptqc/analyze.py
rename to src/cosmicqc/analyze.py
diff --git a/tests/test_analyze.py b/tests/test_analyze.py
index 10494a1..93103e1 100644
--- a/tests/test_analyze.py
+++ b/tests/test_analyze.py
@@ -1,9 +1,9 @@
 """
-Tests sculptqc analyze module
+Tests cosmicqc analyze module
 """
 
 import pandas as pd
-from sculptqc import analyze
+from cosmicqc import analyze
 
 
 def test_find_outliers_cfret(cytotable_CFReT_data_df: pd.DataFrame):