RLS Version 1.3.0

- Output density values - Compatibility with Pyrodigal ≥3.0
BigDataBiology · Dec 5, 2023 · f66af73 · f66af73
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diff --git a/ChangeLog b/ChangeLog
@@ -1,4 +1,5 @@
-Unreleased
+Version 1.3.0 2023-12-05
+	* Add compatibility with Pyrodigal ≥3
 	* Add density estimates to output
 
 Version 1.2.0 2022-05-09

diff --git a/docs/whatsnew.md b/docs/whatsnew.md
@@ -1,5 +1,13 @@
 # What's new? (History)
 
+## Version 1.3.0
+
+*Released 5 December 2023*
+
+- Adds density estimates to output
+- Adds compatibility with Pyrodigal ≥3
+
+
 ## Version 1.2.0
 
 *Released May 9 2022*

diff --git a/macrel/macrel_version.py b/macrel/macrel_version.py
@@ -1 +1 @@
-__version__ = '1.2.0'
+__version__ = '1.3.0'
diff --git a/tests/contigs.cluster/expected.prediction b/tests/contigs.cluster/expected.prediction
@@ -1,4 +1,4 @@
-# Prediction from macrel v1.2.0
+# Prediction from macrel v1.3.0
 Access	Sequence	AMP_family	AMP_probability	Hemolytic	Hemolytic_probability
 smORF_2	RFLIKMVKVNLMNGKLIRKISLM	CLP	0.634	Hemo	0.871
 smORF_19	FFNDGKGTIYYGIKKYFRIYF	CLP	0.673	Hemo	0.822
diff --git a/tests/contigs.nosmorfs/expected.percontigs b/tests/contigs.nosmorfs/expected.percontigs
@@ -1,4 +1,4 @@
-# Prediction from macrel v1.2.0
+# Prediction from macrel v1.3.0
 # Macrel calculated for the sample a density of 0.000 AMPs / Mbp.
 contig	length	ORFs	smORFs	AMPs
 scaffold2530_2_MH0058	1324	1	0	0
diff --git a/tests/contigs.nosmorfs/expected.prediction b/tests/contigs.nosmorfs/expected.prediction
@@ -1,2 +1,2 @@
-# Prediction from macrel v1.2.0
+# Prediction from macrel v1.3.0
 Access	Sequence	AMP_family	AMP_probability	Hemolytic	Hemolytic_probability
diff --git a/tests/contigs/expected.percontigs b/tests/contigs/expected.percontigs
@@ -1,4 +1,4 @@
-# Prediction from macrel v1.2.0
+# Prediction from macrel v1.3.0
 # Macrel calculated for the sample a density of 45.062 AMPs / Mbp.
 contig	length	ORFs	smORFs	AMPs
 scaffold2530_2_MH0058	717	2	2	0

diff --git a/tests/contigs/expected.prediction b/tests/contigs/expected.prediction
@@ -1,4 +1,4 @@
-# Prediction from macrel v1.2.0
+# Prediction from macrel v1.3.0
 Access	Sequence	AMP_family	AMP_probability	Hemolytic	Hemolytic_probability
 scaffold75334_1_MH0058_1	RFLIKMVKVNLMNGKLIRKISLM	CLP	0.634	Hemo	0.871
 scaffold33693_17_MH0058_2	FFNDGKGTIYYGIKKYFRIYF	CLP	0.673	Hemo	0.822
diff --git a/tests/peptides/expected.prediction b/tests/peptides/expected.prediction
@@ -1,4 +1,4 @@
-# Prediction from macrel v1.2.0
+# Prediction from macrel v1.3.0
 Access	Sequence	AMP_family	AMP_probability	Hemolytic	Hemolytic_probability
 AP00002|AMP	YVPLPNVPQPGRRPFPTFPGQGPFNPKIKWPQGY	CLP	0.861	Hemo	0.663
 AP00007|AMP	GNNRPVYIPQPRPPHPRL	CLP	0.970	Hemo	0.515

diff --git a/tests/reads.se/expected.percontigs b/tests/reads.se/expected.percontigs
@@ -1,4 +1,4 @@
-# Prediction from macrel v1.2.0
+# Prediction from macrel v1.3.0
 # Macrel calculated for the sample a density of 59.743 AMPs / Mbp.
 contig	length	ORFs	smORFs	AMPs
 k47_0	3379	4	2	0

diff --git a/tests/reads.se/expected.prediction b/tests/reads.se/expected.prediction
@@ -1,4 +1,4 @@
-# Prediction from macrel v1.2.0
+# Prediction from macrel v1.3.0
 Access	Sequence	AMP_family	AMP_probability	Hemolytic	Hemolytic_probability
 k47_10_1	RFLIKMVKVNLMNGKLIRKISLM	CLP	0.634	Hemo	0.871
 k47_11_1	FFNDGKGTIYYGIKKYFRIYF	CLP	0.673	Hemo	0.822
diff --git a/tests/reads/expected.percontigs b/tests/reads/expected.percontigs
@@ -1,4 +1,4 @@
-# Prediction from macrel v1.2.0
+# Prediction from macrel v1.3.0
 # Macrel calculated for the sample a density of 57.627 AMPs / Mbp.
 contig	length	ORFs	smORFs	AMPs
 k77_3	1270	1	0	0

diff --git a/tests/reads/expected.prediction b/tests/reads/expected.prediction
@@ -1,4 +1,4 @@
-# Prediction from macrel v1.2.0
+# Prediction from macrel v1.3.0
 Access	Sequence	AMP_family	AMP_probability	Hemolytic	Hemolytic_probability
 k77_12_1	RFLIKMVKVNLMNGKLIRKISLM	CLP	0.634	Hemo	0.871
 k77_15_1	FFNDGKGTIYYGIKKYFRIYF	CLP	0.673	Hemo	0.822