SSSOM-Java is an implementation of the SSSOM standard for the Java language – just a hobby, won’t be big and professional like sssom-py.
It provides a library of Java classes to represent and manipulate SSSOM mappings and mapping sets, read and write them to and from the SSSOM TSV serialisation format. It implements an ad-hoc filtering and transformation language, tentatively named SSSOM/Transform or SSSOM/T, to allow rule-based arbitrary transformation of mappings into any kind of objects.
It also provides a ROBOT plugin to use or generate SSSOM mapping sets as part of a pipeline of ROBOT commands.
The project is located at https://incenp.org/dvlpt/sssom-java/. The source code is available in a Git repository at https://github.com/gouttegd/sssom-java.
SSSOM-Java is distributed under the terms of the GNU General Public License, version 3 or higher.
It includes code that is automatically derived from https://github.com/mapping-commons/sssom (all the classes under the org.incenp.obofoundry.sssom.model package). That code is distributed under the same terms as the schema itself:
Copyright (c) 2022, Nico Matentzoglu All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: 1. Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. 2. Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. 3. Neither the name of the copyright holder nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
