viral_seq 1.0.3 → 1.0.4
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 +5 -0
- data/bin/locator +1 -1
- data/lib/viral_seq/muscle.rb +1 -1
- data/lib/viral_seq/version.rb +1 -1
- metadata +1 -1
checksums.yaml
CHANGED
|
@@ -1,7 +1,7 @@
|
|
|
1
1
|
---
|
|
2
2
|
SHA256:
|
|
3
|
-
metadata.gz:
|
|
4
|
-
data.tar.gz:
|
|
3
|
+
metadata.gz: 7f54bac7de0e2ffe1b4eac99b6f325b039a3be19d832926ebf1b280154cd0ad2
|
|
4
|
+
data.tar.gz: f5c5fe62299ec5253c4b8b395816a9158e8d60f428b757161daf209da70b0c0e
|
|
5
5
|
SHA512:
|
|
6
|
-
metadata.gz:
|
|
7
|
-
data.tar.gz:
|
|
6
|
+
metadata.gz: 5c9b7767cbd000c253c7a6f98432e6230adfb6736cf39ced62815443f82f1cee7f446ebabf7791c67675bf37e664f7f4ac9570350894a871ac0310c36844213e
|
|
7
|
+
data.tar.gz: '049d8b2fc82f09ab618d777a2dc6d20922dd6e4c9af8f6c47ca734b8caa46c4fcee10617247404b6ac85c3e31e3d47353c7162b7c6f1df17ec6ce9efb94829a5'
|
data/README.md
CHANGED
|
@@ -47,6 +47,11 @@ Examine for drug resistance mutations for HIV PR region
|
|
|
47
47
|
|
|
48
48
|
## Updates
|
|
49
49
|
|
|
50
|
+
Version 1.0.4-07102019:
|
|
51
|
+
|
|
52
|
+
1. Use home directory (Dir.home) instead of the directory of the script file for temp MUSCLE file.
|
|
53
|
+
2. Fix bugs in bin `locator`
|
|
54
|
+
|
|
50
55
|
Version 1.0.3-07102019:
|
|
51
56
|
|
|
52
57
|
1. Bug fix.
|
data/bin/locator
CHANGED
|
@@ -52,7 +52,7 @@ def myparser
|
|
|
52
52
|
return options
|
|
53
53
|
end
|
|
54
54
|
|
|
55
|
-
puts "\nSequence Locator (RubyGem::ViralSeq)
|
|
55
|
+
puts "\nSequence Locator (RubyGem::ViralSeq) #{ViralSeq::VERSION} by Shuntai Zhou"
|
|
56
56
|
puts "See details at https://github.com/ViralSeq/viral_seq\n"
|
|
57
57
|
puts "Resembling Sequence Locator from LANL (https://www.hiv.lanl.gov/content/sequence/LOCATE/locate.html)\n\n"
|
|
58
58
|
|
data/lib/viral_seq/muscle.rb
CHANGED
|
@@ -38,7 +38,7 @@ module ViralSeq
|
|
|
38
38
|
# => ["AAGGCGTAGGAC-", "-AAGCTTAGGACG"]
|
|
39
39
|
|
|
40
40
|
def self.align(ref_seq = "", test_seq = "", path_to_muscle = false)
|
|
41
|
-
temp_dir=
|
|
41
|
+
temp_dir = Dir.home
|
|
42
42
|
temp_file = temp_dir + "/_temp_muscle_in"
|
|
43
43
|
temp_aln = temp_dir + "/_temp_muscle_aln"
|
|
44
44
|
name = ">test"
|
data/lib/viral_seq/version.rb
CHANGED