bio-bigwig 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 -14
- data/ext/bio/bigwig/bigwigext.c +1 -1
- data/ext/bio/bigwig/extconf.rb +7 -25
- data/lib/bio/bigwig/version.rb +1 -1
- metadata +4 -21
- data/ext/bio/bigwig/libBigWig/LICENSE +0 -22
- data/ext/bio/bigwig/libBigWig/bigWig.h +0 -606
- data/ext/bio/bigwig/libBigWig/bigWigIO.h +0 -110
- data/ext/bio/bigwig/libBigWig/bwCommon.h +0 -70
- data/ext/bio/bigwig/libBigWig/bwRead.c +0 -427
- data/ext/bio/bigwig/libBigWig/bwStats.c +0 -537
- data/ext/bio/bigwig/libBigWig/bwValues.c +0 -803
- data/ext/bio/bigwig/libBigWig/bwValues.h +0 -77
- data/ext/bio/bigwig/libBigWig/bwWrite.c +0 -1333
- data/ext/bio/bigwig/libBigWig/io.c +0 -296
- data/ext/bio/bigwig/libBigWig/test/exampleWrite.c +0 -76
- data/ext/bio/bigwig/libBigWig/test/testBigBed.c +0 -132
- data/ext/bio/bigwig/libBigWig/test/testIterator.c +0 -67
- data/ext/bio/bigwig/libBigWig/test/testLocal.c +0 -223
- data/ext/bio/bigwig/libBigWig/test/testRemote.c +0 -203
- data/ext/bio/bigwig/libBigWig/test/testRemoteManyContigs.c +0 -46
- data/ext/bio/bigwig/libBigWig/test/testWrite.c +0 -68
checksums.yaml
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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: f41aa1f4b018bb4e095d971cff0aa56e82ff4e0e9b1be3f542c2479c10d5a8da
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data.tar.gz: 84de77c8c84d1542e14b34066f26fd969bb009dd94c7f6e9ed52a9b37d01a849
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SHA512:
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metadata.gz:
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data.tar.gz:
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metadata.gz: 940906811fbe9f4500e8ffaeaee6828482e90ecf2d4842bcc3b7521c5a3202b09c6e05e06448dbabc798ee45a148de0a6264a2a3b5deae4a00976684b6807b64
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data.tar.gz: cf77bebe39c40252a9aa0c6f62b2457bb143c380128fc5dae75f6628a0109fb93336d005c3e4e1d30cec716f8ed152e25324eb5f849e5fdcc402390a5f9346c6
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data/README.md
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# bio-bigwig
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[](https://rubygems.org/gems/bio-bigwig)
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[](https://github.com/kojix2/bio-bigwig/actions/workflows/ci.yml)
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[](https://rubydoc.info/gems/bio-bigwig)
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Ruby wrapper to [libBigWig](https://github.com/dpryan79/libBigWig) compatible with [pyBigWig](https://github.com/deeptools/pyBigWig).
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* Currently, curl does not seem to work well ((Pull requests welcome)).
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@@ -7,18 +11,6 @@ Ruby wrapper to [libBigWig](https://github.com/dpryan79/libBigWig) compatible wi
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## Installation
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Installation from source.
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```
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git clone --recursive https://github.com/kojix2/bio-bigwig
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cd bio-bigwig
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bundle install
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bundle exec rake compile
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bundle exec rake install
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```
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Not yet uploaded to the Gem server.
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-
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```
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gem install bio-bigwig
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```
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# )
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```
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## Contributing
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Bug reports and pull requests are welcome on GitHub at <https://github.com/kojix2/bio-bigwig>.
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## Development
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Pull requests are welcome!
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## Contributing
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-
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Do you need commit rights to my repository?
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Do you want to get admin rights and take over the project?
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If so, please feel free to contact us @kojix2.
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## License
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data/ext/bio/bigwig/bigwigext.c
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#define NUM2INT64 NUM2LONG
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#define UINT64_2NUM ULONG2NUM
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#define INT64_2NUM LONG2NUM
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#elif
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#elif SIZEOF_LONG_LONG == SIZEOF_INT64
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#define NUM2UINT64 NUM2ULL
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#define NUM2INT64 NUM2LL
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#define UINT64_2NUM ULL2NUM
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data/ext/bio/bigwig/extconf.rb
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# frozen_string_literal: true
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require "mkmf"
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#
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$CFLAGS << " #{`curl-config --cflags`.strip} -g"
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$LIBS << if ENV["STATIC_BUILD"]
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" #{`curl-config --static-libs`.strip}"
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else
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" #{`curl-config --libs`.strip}"
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end
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ca_bundle_path = `curl-config --ca`.strip
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if !ca_bundle_path.nil? && (ca_bundle_path != "")
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$defs.push(%(-D HAVE_CURL_CONFIG_CA))
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$defs.push(%(-D CURL_CONFIG_CA='#{ca_bundle_path.inspect}'))
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end
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end
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# check curl
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have_library("curl", "curl_easy_init")
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have_header("libbigwig/bigWig.h")
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$
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$srcs = Dir.glob(["{.,libBigWig}/*.c"], base: __dir__)
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.map { |f| File.expand_path(f, __dir__) }
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$objs = $srcs.map { |f| f.sub(/\.c$/, ".o") }
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# end
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$srcs = Dir.glob("libBigWig/*.c", base: __dir__)
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.map { |src| File.expand_path(src, __dir__) }
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.unshift(File.expand_path("bigwigext.c", __dir__))
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$objs = $srcs.map { |src| src.gsub(/\.c\z/, ".o") }
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create_makefile("bio/bigwig/bigwigext")
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data/lib/bio/bigwig/version.rb
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metadata
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--- !ruby/object:Gem::Specification
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name: bio-bigwig
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version: !ruby/object:Gem::Version
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version: 0.0.
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version: 0.0.2
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platform: ruby
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authors:
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- kojix2
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autorequire:
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bindir: bin
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cert_chain: []
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date:
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date: 2024-09-20 00:00:00.000000000 Z
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dependencies: []
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description: This is a Ruby binding for libBigWig (https://github.com/dpryan79/libBigWig),
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which provides high-speed access to bigWig or bigBed files.
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- ext/bio/bigwig/bigwigext.c
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- ext/bio/bigwig/bigwigext.h
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- ext/bio/bigwig/extconf.rb
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- ext/bio/bigwig/libBigWig/LICENSE
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- ext/bio/bigwig/libBigWig/bigWig.h
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- ext/bio/bigwig/libBigWig/bigWigIO.h
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- ext/bio/bigwig/libBigWig/bwCommon.h
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- ext/bio/bigwig/libBigWig/bwRead.c
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- ext/bio/bigwig/libBigWig/bwStats.c
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- ext/bio/bigwig/libBigWig/bwValues.c
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- ext/bio/bigwig/libBigWig/bwValues.h
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- ext/bio/bigwig/libBigWig/bwWrite.c
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- ext/bio/bigwig/libBigWig/io.c
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- ext/bio/bigwig/libBigWig/test/exampleWrite.c
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- ext/bio/bigwig/libBigWig/test/testBigBed.c
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- ext/bio/bigwig/libBigWig/test/testIterator.c
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- ext/bio/bigwig/libBigWig/test/testLocal.c
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- ext/bio/bigwig/libBigWig/test/testRemote.c
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- ext/bio/bigwig/libBigWig/test/testRemoteManyContigs.c
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- ext/bio/bigwig/libBigWig/test/testWrite.c
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- lib/bio/bigwig.rb
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- lib/bio/bigwig/version.rb
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homepage: https://github.com/kojix2/
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homepage: https://github.com/kojix2/bio-bigwig
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licenses:
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- MIT
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metadata: {}
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- !ruby/object:Gem::Version
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version: '0'
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requirements: []
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rubygems_version: 3.
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rubygems_version: 3.4.19
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signing_key:
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specification_version: 4
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summary: A ruby library for accessing bigWig / bigBed files
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The MIT License (MIT)
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Copyright (c) 2015 Devon Ryan
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Permission is hereby granted, free of charge, to any person obtaining a copy
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of this software and associated documentation files (the "Software"), to deal
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in the Software without restriction, including without limitation the rights
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to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
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copies of the Software, and to permit persons to whom the Software is
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furnished to do so, subject to the following conditions:
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The above copyright notice and this permission notice shall be included in all
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copies or substantial portions of the Software.
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THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
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IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
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FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
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AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
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LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
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OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
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SOFTWARE.
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