Release 0.3.0

chrovis · May 8, 2017 · d42c8ba · d42c8ba
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diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -1,6 +1,31 @@
 # Change Log
 
-## [Unreleased]
+## [0.3.0] - 2017-05-08
+
+### BREAKING
+
+From this release, `cljam.vcf/read-variants` parses FORMAT, FILTER, INFO and samples columns of VCF.
+
+```clojure
+(require '[cljam.vcf :as vcf])
+
+(with-open [rdr (vcf/reader "test-resources/vcf/test-v4_3.vcf")]
+  (first (vcf/read-variants rdr)))
+;;=> {:FORMAT (:GT :GQ :DP :HQ),
+;;    :NA00001 {:DP 1, :GQ 48, :GT "0|0", :HQ (51 51)},
+;;    :NA00002 {:DP 8, :GQ 48, :GT "1|0", :HQ (51 51)},
+;;    :NA00003 {:DP 5, :GQ 43, :GT "1/1", :HQ (nil nil)},
+;;    :alt ["A"],
+;;    :chr "20",
+;;    :filter (:PASS),
+;;    :id "rs6054257",
+;;    :info {:AF (0.5), :DB :exists, :DP 14, :H2 :exists, :NS 3},
+;;    :pos 14370,
+;;    :qual 29.0,
+;;    :ref "G"}
+```
+
+Add `{:depth :vcf}` option to the second argument if string is preferred.
 
 ### Added
 
@@ -29,6 +54,8 @@
 * Pileup without options. [#54](https://github.com/chrovis/cljam/pull/54)
 * Refine `trim-chromosome-key`. [#55](https://github.com/chrovis/cljam/pull/55)
 * Refine `fastq-char->phred-byte` / Add `phred-byte->fastq-char`. [#56](https://github.com/chrovis/cljam/pull/56)
+* Separate test resources based on file types. [#71](https://github.com/chrovis/cljam/pull/71)
+* Separate :slow and :heavy test-selectors. [#72](https://github.com/chrovis/cljam/pull/72)
 
 ### Fixed
 
@@ -136,7 +163,8 @@ represents the first three bases of chromosome 1.
 
 First release
 
-[Unreleased]: https://github.com/chrovis/cljam/compare/0.2.1...HEAD
+[Unreleased]: https://github.com/chrovis/cljam/compare/0.3.0...HEAD
+[0.3.0]: https://github.com/chrovis/cljam/compare/0.2.1...0.3.0
 [0.2.1]: https://github.com/chrovis/cljam/compare/0.2.0...0.2.1
 [0.2.0]: https://github.com/chrovis/cljam/compare/0.1.6...0.2.0
 [0.1.6]: https://github.com/chrovis/cljam/compare/0.1.5...0.1.6

diff --git a/README.md b/README.md
@@ -17,7 +17,7 @@ cljam is available as a Maven artifact from [Clojars][clojars].
 To use with Leiningen/Boot, add the following dependency.
 
 ```clojure
-[cljam "0.2.1"]
+[cljam "0.3.0"]
 ```
 
 To use with Maven, add the following dependency.
@@ -26,7 +26,7 @@ To use with Maven, add the following dependency.
 <dependency>
   <groupId>cljam</groupId>
   <artifactId>cljam</artifactId>
-  <version>0.2.1</version>
+  <version>0.3.0</version>
 </dependency>
 ```
 
@@ -103,8 +103,8 @@ Run `lein-bin` plugin and it creates standalone console executable into `target`
 
 ```console
 $ lein with-profile +1.8 bin
-Created /path/to/cljam/target/cljam-0.2.1.jar
-Created /path/to/cljam/target/cljam-0.2.1-standalone.jar
+Created /path/to/cljam/target/cljam-0.3.0.jar
+Created /path/to/cljam/target/cljam-0.3.0-standalone.jar
 Creating standalone executable: /path/to/cljam/target/cljam
 ```
 

diff --git a/project.clj b/project.clj
@@ -1,4 +1,4 @@
-(defproject cljam "0.2.2-SNAPSHOT"
+(defproject cljam "0.3.0"
   :description "A DNA Sequence Alignment/Map (SAM) library for Clojure"
   :url "https://github.com/chrovis/cljam"
   :license {:name "Apache License, Version 2.0"