dirseq 0.2.0 → 0.2.1
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- checksums.yaml +4 -4
- data/README.md +4 -0
- data/VERSION +1 -1
- data/bin/dirseq +1 -1
- metadata +3 -3
checksums.yaml
CHANGED
|
@@ -1,7 +1,7 @@
|
|
|
1
1
|
---
|
|
2
2
|
SHA1:
|
|
3
|
-
metadata.gz:
|
|
4
|
-
data.tar.gz:
|
|
3
|
+
metadata.gz: f1af55dda3a8cfe508bf3cf49fb877dddfbda7b6
|
|
4
|
+
data.tar.gz: e2334d82dfcaf555255234cb61e409a0c3bf262d
|
|
5
5
|
SHA512:
|
|
6
|
-
metadata.gz:
|
|
7
|
-
data.tar.gz:
|
|
6
|
+
metadata.gz: 43d4538cc5bd983468642056f80d3386663c93b7b7a64ecf2c2917fd84592c75787851c83c8657606f228dc1008e15e67733a48ac713e45bb9b2a95556ca37df
|
|
7
|
+
data.tar.gz: 155d7a12624068d8cc8cf20ce2b672c027601a6cc39741ebf78d670cef22779899d26f1073ef2450c2f200bac31f3349262c4d8994094e5138430be692b63596
|
data/README.md
CHANGED
|
@@ -32,7 +32,11 @@ $ dirseq -h
|
|
|
32
32
|
|
|
33
33
|
Optional parameters:
|
|
34
34
|
|
|
35
|
+
--forward-read-only consider only forward reads (i.e. read1) and ignore reverse reads. [default false]
|
|
35
36
|
--ignore-directions ignore directionality, give overall coverage [default: false i.e. differentiate between directions]
|
|
37
|
+
--measure-type TYPE what to count for each gene [options: count, coverage][default: coverage]
|
|
38
|
+
--accepted-feature-types TYPE
|
|
39
|
+
Print only features of these type(s) [default CDS]
|
|
36
40
|
|
|
37
41
|
Verbosity:
|
|
38
42
|
|
data/VERSION
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
0.2.
|
|
1
|
+
0.2.1
|
data/bin/dirseq
CHANGED
|
@@ -50,7 +50,7 @@ o = OptionParser.new do |opts|
|
|
|
50
50
|
end
|
|
51
51
|
opts.on("--accepted-feature-types TYPE", Array,
|
|
52
52
|
"Print only features of these type(s) [default #{options[:accepted_feature_types].join(',')}]") do |arg|
|
|
53
|
-
options[:accepted_feature_types] =
|
|
53
|
+
options[:accepted_feature_types] = Set.new(arg)
|
|
54
54
|
end
|
|
55
55
|
|
|
56
56
|
# logger options
|
metadata
CHANGED
|
@@ -1,14 +1,14 @@
|
|
|
1
1
|
--- !ruby/object:Gem::Specification
|
|
2
2
|
name: dirseq
|
|
3
3
|
version: !ruby/object:Gem::Version
|
|
4
|
-
version: 0.2.
|
|
4
|
+
version: 0.2.1
|
|
5
5
|
platform: ruby
|
|
6
6
|
authors:
|
|
7
7
|
- Ben J. Woodcroft
|
|
8
8
|
autorequire:
|
|
9
9
|
bindir: bin
|
|
10
10
|
cert_chain: []
|
|
11
|
-
date: 2018-
|
|
11
|
+
date: 2018-09-20 00:00:00.000000000 Z
|
|
12
12
|
dependencies:
|
|
13
13
|
- !ruby/object:Gem::Dependency
|
|
14
14
|
name: bio-commandeer
|
|
@@ -160,7 +160,7 @@ required_rubygems_version: !ruby/object:Gem::Requirement
|
|
|
160
160
|
version: '0'
|
|
161
161
|
requirements: []
|
|
162
162
|
rubyforge_project:
|
|
163
|
-
rubygems_version: 2.6.
|
|
163
|
+
rubygems_version: 2.6.14.1
|
|
164
164
|
signing_key:
|
|
165
165
|
specification_version: 4
|
|
166
166
|
summary: FPKG calculator for metatranscriptomics
|