initial commit, rev5225

Author: jreniel

LICENSE

@@ -0,0 +1,176 @@
+                                 Apache License
+                           Version 2.0, January 2004
+                        http://www.apache.org/licenses/
+
+   TERMS AND CONDITIONS FOR USE, REPRODUCTION, AND DISTRIBUTION
+
+   1. Definitions.
+
+      "License" shall mean the terms and conditions for use, reproduction,
+      and distribution as defined by Sections 1 through 9 of this document.
+
+      "Licensor" shall mean the copyright owner or entity authorized by
+      the copyright owner that is granting the License.
+
+      "Legal Entity" shall mean the union of the acting entity and all
+      other entities that control, are controlled by, or are under common
+      control with that entity. For the purposes of this definition,
+      "control" means (i) the power, direct or indirect, to cause the
+      direction or management of such entity, whether by contract or
+      otherwise, or (ii) ownership of fifty percent (50%) or more of the
+      outstanding shares, or (iii) beneficial ownership of such entity.
+
+      "You" (or "Your") shall mean an individual or Legal Entity
+      exercising permissions granted by this License.
+
+      "Source" form shall mean the preferred form for making modifications,
+      including but not limited to software source code, documentation
+      source, and configuration files.
+
+      "Object" form shall mean any form resulting from mechanical
+      transformation or translation of a Source form, including but
+      not limited to compiled object code, generated documentation,
+      and conversions to other media types.
+
+      "Work" shall mean the work of authorship, whether in Source or
+      Object form, made available under the License, as indicated by a
+      copyright notice that is included in or attached to the work
+      (an example is provided in the Appendix below).
+
+      "Derivative Works" shall mean any work, whether in Source or Object
+      form, that is based on (or derived from) the Work and for which the
+      editorial revisions, annotations, elaborations, or other modifications
+      represent, as a whole, an original work of authorship. For the purposes
+      of this License, Derivative Works shall not include works that remain
+      separable from, or merely link (or bind by name) to the interfaces of,
+      the Work and Derivative Works thereof.
+
+      "Contribution" shall mean any work of authorship, including
+      the original version of the Work and any modifications or additions
+      to that Work or Derivative Works thereof, that is intentionally
+      submitted to Licensor for inclusion in the Work by the copyright owner
+      or by an individual or Legal Entity authorized to submit on behalf of
+      the copyright owner. For the purposes of this definition, "submitted"
+      means any form of electronic, verbal, or written communication sent
+      to the Licensor or its representatives, including but not limited to
+      communication on electronic mailing lists, source code control systems,
+      and issue tracking systems that are managed by, or on behalf of, the
+      Licensor for the purpose of discussing and improving the Work, but
+      excluding communication that is conspicuously marked or otherwise
+      designated in writing by the copyright owner as "Not a Contribution."
+
+      "Contributor" shall mean Licensor and any individual or Legal Entity
+      on behalf of whom a Contribution has been received by Licensor and
+      subsequently incorporated within the Work.
+
+   2. Grant of Copyright License. Subject to the terms and conditions of
+      this License, each Contributor hereby grants to You a perpetual,
+      worldwide, non-exclusive, no-charge, royalty-free, irrevocable
+      copyright license to reproduce, prepare Derivative Works of,
+      publicly display, publicly perform, sublicense, and distribute the
+      Work and such Derivative Works in Source or Object form.
+
+   3. Grant of Patent License. Subject to the terms and conditions of
+      this License, each Contributor hereby grants to You a perpetual,
+      worldwide, non-exclusive, no-charge, royalty-free, irrevocable
+      (except as stated in this section) patent license to make, have made,
+      use, offer to sell, sell, import, and otherwise transfer the Work,
+      where such license applies only to those patent claims licensable
+      by such Contributor that are necessarily infringed by their
+      Contribution(s) alone or by combination of their Contribution(s)
+      with the Work to which such Contribution(s) was submitted. If You
+      institute patent litigation against any entity (including a
+      cross-claim or counterclaim in a lawsuit) alleging that the Work
+      or a Contribution incorporated within the Work constitutes direct
+      or contributory patent infringement, then any patent licenses
+      granted to You under this License for that Work shall terminate
+      as of the date such litigation is filed.
+
+   4. Redistribution. You may reproduce and distribute copies of the
+      Work or Derivative Works thereof in any medium, with or without
+      modifications, and in Source or Object form, provided that You
+      meet the following conditions:
+
+      (a) You must give any other recipients of the Work or
+          Derivative Works a copy of this License; and
+
+      (b) You must cause any modified files to carry prominent notices
+          stating that You changed the files; and
+
+      (c) You must retain, in the Source form of any Derivative Works
+          that You distribute, all copyright, patent, trademark, and
+          attribution notices from the Source form of the Work,
+          excluding those notices that do not pertain to any part of
+          the Derivative Works; and
+
+      (d) If the Work includes a "NOTICE" text file as part of its
+          distribution, then any Derivative Works that You distribute must
+          include a readable copy of the attribution notices contained
+          within such NOTICE file, excluding those notices that do not
+          pertain to any part of the Derivative Works, in at least one
+          of the following places: within a NOTICE text file distributed
+          as part of the Derivative Works; within the Source form or
+          documentation, if provided along with the Derivative Works; or,
+          within a display generated by the Derivative Works, if and
+          wherever such third-party notices normally appear. The contents
+          of the NOTICE file are for informational purposes only and
+          do not modify the License. You may add Your own attribution
+          notices within Derivative Works that You distribute, alongside
+          or as an addendum to the NOTICE text from the Work, provided
+          that such additional attribution notices cannot be construed
+          as modifying the License.
+
+      You may add Your own copyright statement to Your modifications and
+      may provide additional or different license terms and conditions
+      for use, reproduction, or distribution of Your modifications, or
+      for any such Derivative Works as a whole, provided Your use,
+      reproduction, and distribution of the Work otherwise complies with
+      the conditions stated in this License.
+
+   5. Submission of Contributions. Unless You explicitly state otherwise,
+      any Contribution intentionally submitted for inclusion in the Work
+      by You to the Licensor shall be under the terms and conditions of
+      this License, without any additional terms or conditions.
+      Notwithstanding the above, nothing herein shall supersede or modify
+      the terms of any separate license agreement you may have executed
+      with Licensor regarding such Contributions.
+
+   6. Trademarks. This License does not grant permission to use the trade
+      names, trademarks, service marks, or product names of the Licensor,
+      except as required for reasonable and customary use in describing the
+      origin of the Work and reproducing the content of the NOTICE file.
+
+   7. Disclaimer of Warranty. Unless required by applicable law or
+      agreed to in writing, Licensor provides the Work (and each
+      Contributor provides its Contributions) on an "AS IS" BASIS,
+      WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or
+      implied, including, without limitation, any warranties or conditions
+      of TITLE, NON-INFRINGEMENT, MERCHANTABILITY, or FITNESS FOR A
+      PARTICULAR PURPOSE. You are solely responsible for determining the
+      appropriateness of using or redistributing the Work and assume any
+      risks associated with Your exercise of permissions under this License.
+
+   8. Limitation of Liability. In no event and under no legal theory,
+      whether in tort (including negligence), contract, or otherwise,
+      unless required by applicable law (such as deliberate and grossly
+      negligent acts) or agreed to in writing, shall any Contributor be
+      liable to You for damages, including any direct, indirect, special,
+      incidental, or consequential damages of any character arising as a
+      result of this License or out of the use or inability to use the
+      Work (including but not limited to damages for loss of goodwill,
+      work stoppage, computer failure or malfunction, or any and all
+      other commercial damages or losses), even if such Contributor
+      has been advised of the possibility of such damages.
+
+   9. Accepting Warranty or Additional Liability. While redistributing
+      the Work or Derivative Works thereof, You may choose to offer,
+      and charge a fee for, acceptance of support, warranty, indemnity,
+      or other liability obligations and/or rights consistent with this
+      License. However, in accepting such obligations, You may act only
+      on Your own behalf and on Your sole responsibility, not on behalf
+      of any other Contributor, and only if You agree to indemnify,
+      defend, and hold each Contributor harmless for any liability
+      incurred by, or claims asserted against, such Contributor by reason
+      of your accepting any such warranty or additional liability.
+
+   END OF TERMS AND CONDITIONS

NOTICE

@@ -0,0 +1,60 @@
+SCHISM: Semi-implicit Cross-scale Hydroscience Integrated System Model
+Copyright 2014 College of William and Mary
+
+For further information contact Y. Joseph Zhang [[email protected]]
+
+
+
+SELFE - END USER LICENSE AGREEMENT 
+ 
+License approved by OHSU's Technology & Research Collaborations office on September 4, 2003. Questions regarding this license agreement should be directed to:
+ 
+Technology and Research Collaborations
+ Oregon Health & Science University
+ 2525 SW First Avenue, Suite AD120
+ Portland, Oregon 97201-4753
+www.ohsu.edu/tech-transfer
+ Phone: 503-494-8200 
+
+ 1. Licensed Software: The Software covered by this agreement (the "Software") is SELFE. The Software includes the current version, all updates and patches to the current version, and all previously released versions. SELFE is a finite-element computer model for numerical simulation of 3D coastal and estuarine baroclinic circulations, developed by the Center for Coastal and Land-Margin Research ("CCALMR") of the Oregon Health & Science University ("OHSU"). The licensed Software includes source code, compiled object code and accompanying documentation. The Software may include third-party software, identified in the source code and documentation. 
+ 
+2. Grant: OHSU hereby grants to you an irrevocable, nonexclusive, nontransferable, perpetual, royalty-free and worldwide license (the "License") to use the Software and to create derivative works employing the Software, subject to the terms and conditions of this License Agreement (the "Agreement").
+ 
+3. Limitation on Distribution: You may not distribute the Software or allow others to use it.
+ 
+4. Copies: You may copy the Software only as reasonably necessary for your licensed use. You agree to reproduce OHSU's copyright notice on all copies of OHSU copyrighted material. You also agree to reproduce any copyright and related notices associated with any third-party software included in the Software.
+ 
+5. Ownership: The Software is licensed, not sold, to you. OHSU retains all rights not specifically granted to you hereunder, including ownership of all OHSU copyrights, trade secrets or other intellectual property rights in the Software and any accompanying information. OHSU asserts no ownership rights in any third-party software included in the Software.
+ 
+All right, title and interest in and to any original material you contribute in derivative works employing OHSU copyrighted material shall remain with you, and you shall have the sole right to determine the disposition of any such original material, except as limited by provisions of this Agreement. The copyright in your original material is independent of, and does not affect, any copyright protection in the OHSU copyrighted material. You agree to provide to OHSU, upon OHSU's request, the source code for any modifications or enhancements you introduce to the Software. OHSU shall have the right to use such modifications and enhancements for any purpose, including, at it's sole discretion, to distribute them in any future release of the Software.
+ 
+6. Publication Credit and Endorsement: You agree to acknowledge OHSU's Center for Coastal and Land-Margin Research (CCALMR) with appropriate citations in any derivative work and in any publication or presentation, including the World Wide Web, containing research results obtained in whole or in part through the use of the Software.
+ 
+OHSU does not directly or indirectly endorse any product or service provided, or to be provided, by you whether directly or indirectly related to the Software. You shall not state or imply that use of the Software is an endorsement by OHSU or its employees.
+ 
+7. Term of License: The License is effective upon receipt by you of the Software and shall continue until terminated. The License will terminate immediately without notice by OHSU if you fail to comply with the terms and conditions of this Agreement. Upon termination of this License, you shall immediately discontinue all use of the Software provided hereunder, and return to OHSU or destroy the original and all copies of all such Software within 30 days. All of your obligations under this Agreement shall survive the termination of the License.
+ 
+8. Warranty: OHSU makes no representations about the suitability, use or performance of this Software or about any content or information made accessible by the Software, for any purpose. The Software is provided "as is," without express or implied warranties including, but not limited to, any implied warranties of merchantability, fitness for a particular purpose, or noninfringement with respect to the software. OHSU is not obligated to support or issue updates to the Software.
+ 
+9. Indemnification: By clicking on the "I ACCEPT" button below, you agree to indemnify and hold OHSU, its directors, trustees, officers, employees, students, fellows, agents, and consultants harmless from and against all liability, demands, damages, expenses, and losses, including but not limited to death, personal injury, illness, or property damage in connection with or arising out of (a) the use of the Software by or on behalf of you or your directors, employees or third parties, or (b) the design, manufacture, distribution or use of the Software, or materials or other products or processes developed in connection with or arising out of the Software.
+ 
+10. U.S. Government Rights: OHSU reserves on behalf of the U.S. Government an irrevocable, nonexclusive, nontransferable, royalty-free, worldwide license to the Software by or on behalf of the U.S. Government and on behalf of any foreign government or international organization pursuant to any existing or future treaty or agreement to which the U.S. Government is a signatory.
+ 
+11. Export Controls: By clicking on the "I ACCEPT" button below, you agree that the Software will not be shipped, transferred or exported into any country or used in any manner prohibited by the United States Export Administration Act or any other export laws, restrictions or regulations.
+ 
+12. Disputes: You and OHSU agree to attempt to settle amicably any controversy or claim arising under this Agreement or a breach of this Agreement. Thereafter, you or OHSU may exercise any administrative or judicial remedies that may be available. The construction, validity, performance, and effect of this Agreement shall be governed by the laws of the State of Oregon.
+ 
+13. Entire Agreement: This Agreement contains the entire agreement between the parties with respect to the subject matter hereof, and it shall not be modified or amended except by an instrument in writing signed by both parties hereto.
+
+
+ROMS license for EcoSim
+Copyright � 2002-2014 The ROMS/TOMS Group
+This Software is open-source and licensed under the following conditions as stated by MIT/X License: 
+
+(See http://www.opensource.org/licenses/mit-license.php ). 
+
+Permission is hereby granted, free of charge, to any person obtaining a copy of this Software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions: 
+
+The above copyright notice and this permission notice shall be included in all copies or substantial portions of the Software. 
+The Software is provided as is, without warranty of any kind, expressed or implied, including but not limited to the warranties of merchantability, fitness for a particular purpose and noninfringement. In no event shall the authors or copyright holders be liable for any claims, damages or other liabilities, whether in an action of contract, tort or otherwise, arising from, out of or in connection with the Software or the use or other dealings in the Software 
+

README

@@ -0,0 +1,8 @@
+SCHISM
+Semi-implicit Cross-scale Hydroscience Integrated System Model
+
+Build instructions may be found on the SCHISM wiki at schism.wiki
+
+When using the development version, note changes in flags and features described in
+beta_notes and examplified in param.in.sample, bctides.in.sample, etc.
+