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authorA. Wilcox <AWilcox@Wilcox-Tech.com>2017-06-11 08:41:26 +0000
committerA. Wilcox <AWilcox@Wilcox-Tech.com>2017-06-11 08:41:26 +0000
commit2f6caac6019e3182486965f7f09baed7e93e1be9 (patch)
tree2d5d4350a1bbf9bafdb5f0a5260714a6190c668d /licenses/procheck
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The New Plan
ebuild branch has old ebuilds. profiles dir still has CFLAGS. Everything else is removed or modified for changing of upstream to Alpine.
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-
-
- PROCHECK - Stereochemical Quality of Protein Structures
- -------------------------------------------------------
- and AQUA for PROCHECK-NMR
- -------------------------
-
- CONFIDENTIALITY AGREEMENT
- -------------------------
-
-
-
-In regard to the PROCHECK suite of programs, specified in Appendix 1
-herewith and the AQUA suite of programs specified in Appendix 2 herewith
-(the Software) supplied to us, the copyright and other intellectual
-property rights to which belong to the authors, we
-
- __________________________________________________________________
-
-undertake to the authors that we shall be bound by the following terms and
-conditions:-
-
-1. We will receive the Software and any related documentation in confidence
-and will not use the same except for the purpose of the department's own
-research. The Software will be used only by such of our officers or
-employees to whom it must reasonably be communicated to enable us to
-undertake our research and who agree to be bound by the same confidence.
-The department shall procure and enforce such agreement from its staff for
-the benefit of the authors.
-
-2. The publication of research using the Software must reference
-
- "Laskowski R A, MacArthur M W, Moss D S & Thornton J M (1993). PROCHECK:
- a program to check the stereochemical quality of protein
- structures. J. Appl. Cryst., 26, 283-291."
-
-and
-
- "Rullmann J A C (1996). AQUA, Computer Program, Department of NMR
- Spectroscopy, Bijvoet Center for Biomolecular Research, Utrecht
- University, The Netherlands."
-
-
-3. Research shall take place solely at the department's premises at
-
- __________________________________________________________________
-
-4. All forms of the Software will be kept in a reasonably secure place to
-prevent unauthorised access.
-
-5. Each copy of the Software or, if not practicable then, any package
-associated therewith shall be suitably marked (and such marking maintained)
-with the following copyright notice: " Copyright 1992 M W MacArthur, R A
-Laskowski, D S Moss, J A C Rullmann & J M Thornton All Rights Reserved".
-
-6. The Software may be modified but any changes made shall be made
-available to the authors.
-
-7. The Software shall be used exclusively for academic teaching and
-research. The Software will not be used for any commercial research or
-research associated with an industrial company.
-
-8. The confidentiality obligation in paragraph one shall not apply:
-
- (i) to information and data known to the department at the time of
- receipt hereunder (as evidenced by its written records);
-
- (ii) to information and data which was at the time of receipt in the
- public domain or thereafter becomes so through no wrongful act of
- the department;
-
- (iii) to information and data which the department receives from a third
- party not in breach of any obligation of confidentiality owed to
- the authors.
-
-
-
-Please sign this Undertaking and return a copy of it to indicate that you
-have read, understood and accepted the above terms.
-
-
-
- For and on behalf of _____________________________
-
- _________________________________________________
-
- ..................................................
-
- Dated ............................................
-
-
-
-
-APPENDIX 1 - DETAILS OF THE PROCHECK SUITE OF PROGRAMS PROVIDED (v.3.4.3)
----------------------------------------------------------------
-
-Files to be included
---------------------
-
- 1. anglen.f }
- 2. anglen.inc }
- 3. bplot.f }
- 4. bplot.inc }
- 5. brkcln.par }
- 6. clean.f }
- 7. gfac2pdb.f }
- 8. gfac2pdb.inc }
- 9. mplot.f }
- 10. mplot.inc } Source program files
- 11. nb.c }
- 12. pplot.f }
- 13. pplot.inc }
- 14. ps.f }
- 15. rmsdev.f }
- 16. rmsdev.inc }
- 17. secstr.f }
- 18. sstruc.par }
- 19. tplot.f }
- 20. tplot.inc }
- 21. viol2pdb.f }
- 22. viol2pdb.inc }
- 23. vplot.f }
- 24. vplot.inc }
- 25. gfac2pdb.scr }
- 26. procheck.com }
- 27. procheck.scr }
- 28. procheck_comp.com }
- 29. procheck_comp.scr }
- 30. procheck_nmr.scr }
- 31. proplot.com }
- 32. proplot.scr } Script files
- 33. proplot_comp.scr }
- 34. proplot_nmr.scr }
- 35. proplot_comp.com }
- 36. prosub.com }
- 37. setup.com }
- 38. setup.scr }
- 39. viol2pdb.scr }
- 40. convax.for }
- 41. procomp.com } Installation files
- 42. procomp.scr }
- 43. maninst.ps }
- 44. manual.tar.Z } Documentation files
- 45. nmr_manual.tar.Z }
- 46. procheck.dat }
- 47. procheck.prm } Data
- 48. procheck_comp.prm } files
- 49. procheck_nmr.prm }
-
-
-APPENDIX 2 - DETAILS OF THE AQUA SUITE OF PROGRAMS PROVIDED (v.0.40)
------------------------------------------------------------
-
-Files to be included
---------------------
-
-Source files:-
-------------
-
-AquaCalc.c AquaCalc.h
- AquaData.h
-AquaDist.c AquaDist.h
-AquaFiles.c AquaFiles.h
-AquaFuncts.c AquaFuncts.h
-AquaFuncts_biosym.c AquaFuncts_biosym.h
-AquaFuncts_cv.c AquaFuncts_cv.h
-AquaFuncts_io.c AquaFuncts_io.h
-AquaFuncts_pdb.c AquaFuncts_pdb.h
-AquaFuncts_pdbmr.c AquaFuncts_pdbmr.h
-AquaHow.c AquaHow.h
- AquaMacros.h
-AquaPseudo.c AquaPseudo.h
-AquaStrucset.c AquaStrucset.h
- AquaTypes.h
-AquaWhat.c AquaWhat.h
-Qext.c Qext.h
-Range.c Range.h
- cv_subs.h
-
-Script files:-
-------------
-ReadNrv.pm* convDIANAtorsrestr qdbext*
-aqdrst* convDISGEOdistrestr qguessc*
-aqpc* convDISGEOtorsrestr qguessr*
-aqpcsel convMRTABLE qhelp*
-aquanal.pl* convXPLORdistrestr qmodr*
-clean0* convXPLORtorsrestr qsplitr*
-convBIOSYMdistrestr makecmm* qsumm*
-convBIOSYMtorsrestr qconvert* qsumm_aux1*
-convDIANAdistrestr qconvr* qsumm_aux2*
-
-Documentation:-
--------------
-README models.txt qconvr.txt
-aqpc.txt mr.txt qdbext.txt
-aqua_setup.txt names.txt qext.txt
-biosym.txt overview.txt qhelp.txt
-chains.txt perl.txt qsumm.txt
-conversion.txt procheck.txt restraint_format.txt
-dbas.txt qanal.txt setup.txt
-intro.txt qclean.txt torsion.txt
-log.txt qconvert.txt xplor.txt
-
-Extras:-
-------
-joinpdb* splitpdb*
-
-
-
-Please complete the above form, sign it, and then send or fax to:-
-
-
-Roman Laskowski
-European Bioinformatics Institute,
-Wellcome Trust Genome Campus,
-Hinxton,
-Cambridge, CB10 1SD,
-United Kingdom
-
-Fax:- +44 (0)1223 494 468
-
-If you have any problems either installing the software or running it,
-please e-mail your problems to:-
-
- roman@ebi.ac.uk
-
-Questions about AQUA should be directed to Ton Rullmann at
-
- rull@nmr.chem.ruu.nl
-