ruby-igv 0.0.1 → 0.0.2
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 +11 -7
- data/lib/igv.rb +3 -3
- data/lib/igv/version.rb +1 -1
- metadata +1 -1
checksums.yaml
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@@ -1,7 +1,7 @@
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---
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SHA256:
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metadata.gz:
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data.tar.gz:
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metadata.gz: 9610c6073f8aa07bc0a6d72ad5ea885caf0bca0810633cc51da6f56fdedb9162
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data.tar.gz: 3e547657f35d6df732e555260cf3be51182eb1c153967aa18ed98f7896e85c28
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SHA512:
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metadata.gz:
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data.tar.gz:
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metadata.gz: f41a575c7c740a008d099b3941a880b15a62c9b54bb3c2969677f36a98819f1fafcb16a0475a2da86c88bcfcf0d79dea149ca3f429a06bd49ac7a980d67c6582
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data.tar.gz: 0126ef0bebc9e1b89d761a2f1acebd1f896498692320623fa27190cfcb91e17c8c08dbb8fbc39897a7957fde332534602abade7814b8694f8f02b80e2c230c84
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data/README.md
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@@ -1,6 +1,10 @@
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# Ruby-IGV
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[](https://badge.fury.io/rb/ruby-igv)
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[](https://rubydoc.info/gems/ruby-igv)
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[](LICENSE.txt)
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Using [Integrative Genomics Viewer (IGV)](http://software.broadinstitute.org/software/igv/) with the Ruby language.
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Based on [brentp/bio-playground/igv](https://github.com/brentp/bio-playground).
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@@ -14,12 +18,12 @@ gem install ruby-igv
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```ruby
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igv = IGV.new
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igv.
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igv.load
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igv.go
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igv.save
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igv.save
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igv.send
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igv.genome 'hg19'
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igv.load 'http://hgdownload.cse.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeUwRepliSeq/wgEncodeUwRepliSeqK562G1AlnRep1.bam'
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igv.go 'chr18:78,016,233-78,016,640'
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igv.save '/tmp/r/region.svg'
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igv.save '/tmp/r/region.png'
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igv.send 'echo' #whatever
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```
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## Contributing
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data/lib/igv.rb
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@@ -7,7 +7,7 @@ class IGV
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class Error < StandardError; end
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attr_reader :host, :port, :snapshot_dir, :commands
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def initialize(host: '127.0.0.1', port: 60_151, snapshot_dir:
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def initialize(host: '127.0.0.1', port: 60_151, snapshot_dir: Dir.pwd)
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@host = host
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@port = port
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@commands = []
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@@ -83,8 +83,8 @@ class IGV
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if file_path
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# igv assumes the path is just a single filename, but
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# we can set the snapshot dir. then just use the filename.
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dir_path =
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set_snapshot_dir(dir_path)
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dir_path = File.dirname(file_path)
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set_snapshot_dir(File.expand_path(dir_path)) if dir_path != '.'
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send 'snapshot ' + File.basename(file_path)
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else
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send 'snapshot'
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data/lib/igv/version.rb
CHANGED