From 8e1144c740320761d61ccd69eebb680f80062fb3 Mon Sep 17 00:00:00 2001
From: Jamie Morton <jamietmorton@gmail.com>
Date: Fri, 28 Jun 2019 12:14:39 -0400
Subject: [PATCH 1/3] bump

---
 setup.py | 1 -
 1 file changed, 1 deletion(-)

diff --git a/setup.py b/setup.py
index 2d89019..1cdfc11 100644
--- a/setup.py
+++ b/setup.py
@@ -30,7 +30,6 @@
 description = ('Vanilla regression methods for microbiome '
                'differential abundance analysis')
 
-
 long_description = description
 
 # version parsing from __init__ pulled from Flask's setup.py

From b4405507741fec58a8b35786a05ca4263a0f6428 Mon Sep 17 00:00:00 2001
From: Jamie Morton <jamietmorton@gmail.com>
Date: Fri, 28 Jun 2019 12:15:30 -0400
Subject: [PATCH 2/3] bump

---
 setup.py | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/setup.py b/setup.py
index 1cdfc11..8e53d7c 100644
--- a/setup.py
+++ b/setup.py
@@ -14,7 +14,7 @@
 
 
 classes = """
-    Development Status :: 3 - Alpha
+    Development Status :: 4 - Beta
     License :: OSI Approved :: BSD License
     Topic :: Software Development :: Libraries
     Topic :: Scientific/Engineering
@@ -44,6 +44,7 @@
       version=version,
       description=description,
       long_description=long_description,
+      long_description_content_type='text/markdown',
       author="gneiss development team",
       author_email="jamietmorton@gmail.com",
       maintainer="gneiss development team",

From b5db517d51cca0500b67c7fe29b5ca67472bde67 Mon Sep 17 00:00:00 2001
From: Jamie Morton <jamietmorton@gmail.com>
Date: Tue, 2 Jul 2019 18:28:28 -0600
Subject: [PATCH 3/3] removing imports

---
 songbird/q2/_transformer.py | 16 +---------------
 1 file changed, 1 insertion(+), 15 deletions(-)

diff --git a/songbird/q2/_transformer.py b/songbird/q2/_transformer.py
index 20c061d..9032fa8 100644
--- a/songbird/q2/_transformer.py
+++ b/songbird/q2/_transformer.py
@@ -1,7 +1,7 @@
 import qiime2
 import pandas as pd
 
-from songbird.q2 import SongbirdStatsFormat, DifferentialFormat
+from songbird.q2 import SongbirdStatsFormat
 from songbird.q2.plugin_setup import plugin
 
 
@@ -15,17 +15,3 @@ def _2(obj: qiime2.Metadata) -> SongbirdStatsFormat:
     ff = SongbirdStatsFormat()
     obj.save(str(ff))
     return ff
-
-
-@plugin.register_transformer
-def _3(ff: DifferentialFormat) -> pd.DataFrame:
-    df = pd.read_csv(str(ff), sep='\t', comment='#', skip_blank_lines=True,
-                     header=0, dtype=object, index_col=0)
-    return df
-
-
-@plugin.register_transformer
-def _4(df: pd.DataFrame) -> DifferentialFormat:
-    ff = DifferentialFormat()
-    df.to_csv(str(ff), sep='\t', header=True, index=True)
-    return ff