From c750fcd3172f0f2d3a14da5bdff15ffdc82ffbfc Mon Sep 17 00:00:00 2001
From: Jamie Morton <jamietmorton@gmail.com>
Date: Thu, 5 Sep 2019 16:58:31 -0400
Subject: [PATCH 1/2] Version bump

---
 songbird/__init__.py | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/songbird/__init__.py b/songbird/__init__.py
index fa3ddd8..824978d 100644
--- a/songbird/__init__.py
+++ b/songbird/__init__.py
@@ -1 +1 @@
-__version__ = "0.8.4"
+__version__ = "0.9"

From 50a30dc47f31a745eac7e59ef95db4c2475c3d74 Mon Sep 17 00:00:00 2001
From: Jamie Morton <jamietmorton@gmail.com>
Date: Tue, 17 Sep 2019 10:54:51 -0400
Subject: [PATCH 2/2] Version bump.  Also resolves #68

---
 CHANGELOG.md     | 3 +++
 scripts/songbird | 6 ++++--
 2 files changed, 7 insertions(+), 2 deletions(-)

diff --git a/CHANGELOG.md b/CHANGELOG.md
index b0f4c90..5e46712 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -1,5 +1,8 @@
 # songbird changelog
 
+## Version 0.9 (2019-9-5)
+Added compatibility with the new qiime2 differential type [#60](https://github.com/biocore/songbird/pull/60)
+
 ## Version 0.8.4 (2019-7-8)
 
 Minor release bump. Differential types are now inherited from q2 types.
diff --git a/scripts/songbird b/scripts/songbird
index ad7f404..e43ba2b 100644
--- a/scripts/songbird
+++ b/scripts/songbird
@@ -102,9 +102,11 @@ def multinomial(input_biom, metadata_file, formula, training_column,
 
     beta_ = clr(clr_inv(np.hstack((np.zeros((model.p, 1)), model.B))))
 
-    pd.DataFrame(
+    df = pd.DataFrame(
         beta_.T, columns=md_ids, index=obs_ids,
-    ).to_csv(os.path.join(summary_dir, 'differentials.tsv'), sep='\t')
+    )
+    df.index.name = 'featureid'
+    df.to_csv(os.path.join(summary_dir, 'differentials.tsv'), sep='\t')
 
 
 if __name__ == '__main__':