ruby-igv 0.0.3 → 0.0.4

checksums.yaml

@@ -1,7 +1,7 @@
 ---
 SHA256:
-  metadata.gz: 475797ed38ba6259aa3810c00937620548829ae8d173d8f9d5831267f4251413
-  data.tar.gz: ddc1aafe06f597cbb8715d0533222572e2453870871dae2e35ab0664f446fdcd
+  metadata.gz: 8915f9a26a6b4b4bbe15dc5dd35d156ca9c84a5b2737c4b81ffa1441b5049e2d
+  data.tar.gz: 44980727b24b348a3167566179e9a75755cda0023761624de1fb72fdfe3701cd
 SHA512:
-  metadata.gz: 0f8de5afd14e5d12af5c85eef8e7059924bf1282bbd985d3ad645545069699c0e51707b5dac18a1f2ec9c9ce88034312ae31332b1b5b1deaf354b16fa2242d7d
-  data.tar.gz: 00dc6e66fbf3483209a5982cd455bd3569222dacbc302e667b48e69d8cd7fe3ea81e1036133b5209e461a3c503c574330220c574ccff1f8b5fc38575f39b5552
+  metadata.gz: 232bc8a829604e65fb67e7b39aa0480e3c0165e1291022c1162469ed5d126caefe0881b124e70fb4c386a51937e1530d812fb5ec459d8067fa9264e78b368202
+  data.tar.gz: c57afdcf2dcbf5d9829fd3815e4fdc91148a1757906027f663690598438ec3e284b54ff75b07f8ab8c699be93b7674192b78821953cc0846cc333a48bc4572f8

data/README.md

@@ -23,9 +23,13 @@ igv.load   'http://hgdownload.cse.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeUwR
 igv.go     'chr18:78,016,233-78,016,640'
 igv.save   '/tmp/r/region.svg'
 igv.save   '/tmp/r/region.png'
-igv.send   'echo' #whatever
+igv.snapshot_dir = '/tmp/r2/'
+igv.save   'region.jpg'  # save to /tmp/r2/region.png
+igv.send   'echo'        # whatever you want
 ```
 
+* [Controlling IGV through a Port](https://software.broadinstitute.org/software/igv/PortCommands)
+
 ## Contributing
 
 * [Report bugs](https://github.com/kojix2/ruby-igv/issues)

data/lib/igv.rb

@@ -5,11 +5,11 @@ require 'fileutils'
 class IGV
   class Error < StandardError; end
 
-  attr_reader :host, :port, :snapshot_dir, :commands
+  attr_reader :host, :port, :snapshot_dir, :history
   def initialize(host: '127.0.0.1', port: 60_151, snapshot_dir: Dir.pwd)
     @host = host
     @port = port
-    @commands = []
+    @history = []
     connect
     set_snapshot_dir(snapshot_dir)
   end
@@ -30,11 +30,20 @@ class IGV
   alias goto go
 
   def genome(name_or_path)
-    send 'genome ' + name_or_path
+    path = File.expand_path(name_or_path)
+    if File.exist?(path)
+      send 'genome ' + path
+    else
+      send 'genome ' + name_or_path
+    end
   end
 
   def load(path_or_url)
-    send 'load ' + path_or_url
+    if URI.parse(path_or_url).scheme
+      send 'load ' + path_or_url
+    else
+      send 'load ' + File.expand_path(path_or_url)
+    end
   end
 
   def region(contig, start, end_)
@@ -49,16 +58,6 @@ class IGV
     end
   end
 
-  def snapshot_dir=(snapshot_dir)
-    snapshot_dir = File.expand_path(snapshot_dir)
-    return if snapshot_dir == @snaphot_dir
-
-    FileUtils.mkdir_p(snapshot_dir)
-    send "snapshotDirectory #{snapshot_dir}"
-    @snapshot_dir = snapshot_dir
-  end
-  alias set_snapshot_dir snapshot_dir=
-
   def expand(_track = '')
     send "expand #{track}"
   end
@@ -77,11 +76,21 @@ class IGV
   alias quit exit
 
   def send(cmd)
-    @commands << cmd
+    @history << cmd
     @socket.puts(cmd.encode(Encoding::UTF_8))
     @socket.gets&.chomp("\n")
   end
 
+  def snapshot_dir=(snapshot_dir)
+    snapshot_dir = File.expand_path(snapshot_dir)
+    return if snapshot_dir == @snaphot_dir
+
+    FileUtils.mkdir_p(snapshot_dir)
+    send "snapshotDirectory #{snapshot_dir}"
+    @snapshot_dir = snapshot_dir
+  end
+  alias set_snapshot_dir snapshot_dir=
+
   def save(file_path = nil)
     if file_path
       # igv assumes the path is just a single filename, but

data/lib/igv/version.rb

@@ -1,3 +1,3 @@
 class IGV
-  VERSION = '0.0.3'.freeze
+  VERSION = '0.0.4'.freeze
 end

metadata

@@ -1,14 +1,14 @@
 --- !ruby/object:Gem::Specification
 name: ruby-igv
 version: !ruby/object:Gem::Version
-  version: 0.0.3
+  version: 0.0.4
 platform: ruby
 authors:
 - kojix2
 autorequire: 
 bindir: bin
 cert_chain: []
-date: 2020-07-22 00:00:00.000000000 Z
+date: 2020-08-23 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: bundler