Index: head/science/Makefile =================================================================== --- head/science/Makefile (revision 474142) +++ head/science/Makefile (revision 474143) @@ -1,246 +1,247 @@ # $FreeBSD$ # COMMENT = Scientific ports SUBDIR += 2d-rewriter SUBDIR += ALPSCore SUBDIR += InsightToolkit SUBDIR += MOOSE-neural-simulator SUBDIR += PETSc SUBDIR += R-cran-AMORE SUBDIR += R-cran-DCluster SUBDIR += R-cran-Epi SUBDIR += R-cran-bayesm SUBDIR += R-cran-cmprsk SUBDIR += R-cran-e1071 SUBDIR += R-cran-eco SUBDIR += R-cran-epicalc SUBDIR += R-cran-etm SUBDIR += R-cran-fastICA SUBDIR += R-cran-kernlab SUBDIR += R-cran-snow SUBDIR += R-cran-som SUBDIR += R-cran-udunits2 SUBDIR += abinit SUBDIR += afni SUBDIR += aircraft-datcom SUBDIR += antioch SUBDIR += atompaw SUBDIR += avogadro SUBDIR += bddsolve SUBDIR += bft SUBDIR += bodr SUBDIR += brian SUBDIR += buddy SUBDIR += cdcl SUBDIR += cdf SUBDIR += cdo SUBDIR += cgnslib SUBDIR += cgribex SUBDIR += checkmol SUBDIR += chemical-mime-data SUBDIR += chemps2 SUBDIR += chemtool SUBDIR += chemtool-devel SUBDIR += clhep SUBDIR += colt SUBDIR += crf++ SUBDIR += dcl SUBDIR += devisor SUBDIR += dft_tools SUBDIR += dkh SUBDIR += dlib-cpp SUBDIR += dlpoly-classic SUBDIR += eccodes SUBDIR += ecs SUBDIR += epte SUBDIR += erd SUBDIR += fastcap SUBDIR += fasthenry SUBDIR += fisicalab SUBDIR += fsom SUBDIR += fvcom SUBDIR += fvcom-mpi SUBDIR += fvm SUBDIR += gchemutils SUBDIR += gdma SUBDIR += getdp SUBDIR += ghemical SUBDIR += ghmm SUBDIR += gnudatalanguage SUBDIR += gramps SUBDIR += grib_api SUBDIR += gromacs SUBDIR += gsmc SUBDIR += gtamsanalyzer SUBDIR += gwyddion SUBDIR += h5utils SUBDIR += harminv SUBDIR += hdf SUBDIR += hdf5 SUBDIR += hdf5-18 SUBDIR += hypre SUBDIR += iboview SUBDIR += isaac-cfd SUBDIR += jstrack SUBDIR += kalzium SUBDIR += kalzium-kde4 SUBDIR += kst2 SUBDIR += lamprop SUBDIR += libaec SUBDIR += libcint SUBDIR += libctl SUBDIR += libefp SUBDIR += libgeodecomp SUBDIR += libghemical SUBDIR += libint SUBDIR += libkml SUBDIR += liblinear SUBDIR += liboglappth SUBDIR += libquantum SUBDIR += libsvm SUBDIR += libsvm-python SUBDIR += libxc SUBDIR += linsmith SUBDIR += massxpert SUBDIR += mbdyn SUBDIR += mcstas SUBDIR += mcstas-comps SUBDIR += mcxtrace SUBDIR += mcxtrace-comps SUBDIR += medit SUBDIR += meep SUBDIR += mei SUBDIR += metaf2xml SUBDIR += metaphysicl SUBDIR += minc2 + SUBDIR += mmdb2 SUBDIR += mol2ps SUBDIR += mpb SUBDIR += mpqc SUBDIR += mpqc-mpich SUBDIR += ncs SUBDIR += netcdf SUBDIR += netcdf-cxx SUBDIR += netcdf-fortran SUBDIR += nifticlib SUBDIR += openbabel SUBDIR += openkim SUBDIR += p5-Algorithm-SVMLight SUBDIR += p5-Chemistry-3DBuilder SUBDIR += p5-Chemistry-Bond-Find SUBDIR += p5-Chemistry-Canonicalize SUBDIR += p5-Chemistry-Elements SUBDIR += p5-Chemistry-File-MDLMol SUBDIR += p5-Chemistry-File-Mopac SUBDIR += p5-Chemistry-File-PDB SUBDIR += p5-Chemistry-File-SLN SUBDIR += p5-Chemistry-File-SMARTS SUBDIR += p5-Chemistry-File-SMILES SUBDIR += p5-Chemistry-File-VRML SUBDIR += p5-Chemistry-File-XYZ SUBDIR += p5-Chemistry-FormulaPattern SUBDIR += p5-Chemistry-InternalCoords SUBDIR += p5-Chemistry-Isotope SUBDIR += p5-Chemistry-MacroMol SUBDIR += p5-Chemistry-MidasPattern SUBDIR += p5-Chemistry-Mok SUBDIR += p5-Chemistry-Mol SUBDIR += p5-Chemistry-Pattern SUBDIR += p5-Chemistry-Reaction SUBDIR += p5-Chemistry-Ring SUBDIR += p5-Geo-BUFR SUBDIR += p5-Geo-Coordinates-Converter SUBDIR += p5-Geo-Coordinates-Converter-iArea SUBDIR += p5-Geo-ReadGRIB SUBDIR += p5-Geo-WebService-Elevation-USGS SUBDIR += p5-Mcstas-Tools SUBDIR += p5-PerlMol SUBDIR += p5-Physics-Unit SUBDIR += paje SUBDIR += paraview SUBDIR += pcmsolver SUBDIR += pnetcdf SUBDIR += psychopy SUBDIR += pulseview SUBDIR += py-DendroPy SUBDIR += py-MDAnalysis SUBDIR += py-MDAnalysisTests SUBDIR += py-OpenFermion SUBDIR += py-PyQuante SUBDIR += py-ScientificPython SUBDIR += py-SimpleSpectral SUBDIR += py-abipy SUBDIR += py-cdo SUBDIR += py-coards SUBDIR += py-dlib SUBDIR += py-gsd SUBDIR += py-h5py SUBDIR += py-hcluster SUBDIR += py-kinematics SUBDIR += py-mdp SUBDIR += py-mlpy SUBDIR += py-mmtf-python SUBDIR += py-netCDF4 SUBDIR += py-obspy SUBDIR += py-openpiv SUBDIR += py-paida SUBDIR += py-pupynere SUBDIR += py-pyaixi SUBDIR += py-pydicom SUBDIR += py-pymatgen SUBDIR += py-pymol SUBDIR += py-pyosf SUBDIR += py-pysal SUBDIR += py-pyteomics SUBDIR += py-pyteomics.biolccc SUBDIR += py-qspin SUBDIR += py-quantities SUBDIR += py-rmf SUBDIR += py-scikit-fuzzy SUBDIR += py-scikit-learn SUBDIR += py-scikit-sparse SUBDIR += py-scimath SUBDIR += py-scipy SUBDIR += py-scoria SUBDIR += py-spglib SUBDIR += py-tensorflow SUBDIR += py-veusz SUBDIR += py-ws2300 SUBDIR += pybrain SUBDIR += pycdf SUBDIR += pynn SUBDIR += qcl SUBDIR += qtresistors SUBDIR += rdkit SUBDIR += rmf SUBDIR += rubygem-ai4r SUBDIR += rubygem-cdo SUBDIR += rubygem-rgeo SUBDIR += rubygem-rgeo-geojson SUBDIR += rubygem-rgeo-proj4 SUBDIR += rubygem-rgeo-shapefile SUBDIR += rubygem-ruby-dcl SUBDIR += rubygem-ruby-netcdf SUBDIR += sigrok-cli SUBDIR += sigrok-firmware SUBDIR += sigrok-firmware-fx2lafw SUBDIR += sigrok-firmware-utils SUBDIR += silo SUBDIR += simlib SUBDIR += simsmith SUBDIR += spglib SUBDIR += step SUBDIR += step-kde4 SUBDIR += svmlight SUBDIR += szip SUBDIR += tfel SUBDIR += triqs SUBDIR += udunits SUBDIR += v_sim SUBDIR += vmd SUBDIR += voro++ SUBDIR += xfce4-equake-plugin SUBDIR += xmakemol .include Index: head/science/mmdb2/Makefile =================================================================== --- head/science/mmdb2/Makefile (nonexistent) +++ head/science/mmdb2/Makefile (revision 474143) @@ -0,0 +1,21 @@ +# $FreeBSD$ + +PORTNAME= mmdb2 +DISTVERSION= 2.0.12 +CATEGORIES= science +MASTER_SITES= https://www2.mrc-lmb.cam.ac.uk/personal/pemsley/coot/dependencies/ + +MAINTAINER= yuri@FreeBSD.org +COMMENT= C++ toolkit for working with macromolecular coordinate files + +LICENSE= GPLv3 LGPL3 +LICENSE_COMB= dual +LICENSE_FILE_GPLv3= ${WRKSRC}/COPYING +LICENSE_FILE_LGPL3= ${WRKSRC}/COPYING.LESSER + +USES= gmake libtool +GNU_CONFIGURE= yes +CONFIGURE_ARGS= --enable-shared --disable-static +USE_LDCONFIG= yes + +.include Property changes on: head/science/mmdb2/Makefile ___________________________________________________________________ Added: svn:eol-style ## -0,0 +1 ## +native \ No newline at end of property Added: svn:keywords ## -0,0 +1 ## +FreeBSD=%H \ No newline at end of property Added: svn:mime-type ## -0,0 +1 ## +text/plain \ No newline at end of property Index: head/science/mmdb2/distinfo =================================================================== --- head/science/mmdb2/distinfo (nonexistent) +++ head/science/mmdb2/distinfo (revision 474143) @@ -0,0 +1,3 @@ +TIMESTAMP = 1531005594 +SHA256 (mmdb2-2.0.12.tar.gz) = a24fca06266c6b4db06ad1e0e0ddf5037f2ea624347ab119a6b163d8929c62a0 +SIZE (mmdb2-2.0.12.tar.gz) = 723975 Property changes on: head/science/mmdb2/distinfo ___________________________________________________________________ Added: fbsd:nokeywords ## -0,0 +1 ## +yes \ No newline at end of property Added: svn:eol-style ## -0,0 +1 ## +native \ No newline at end of property Added: svn:mime-type ## -0,0 +1 ## +text/plain \ No newline at end of property Index: head/science/mmdb2/pkg-descr =================================================================== --- head/science/mmdb2/pkg-descr (nonexistent) +++ head/science/mmdb2/pkg-descr (revision 474143) @@ -0,0 +1,15 @@ +MMDB is designed to assist developers in working with macromolecular coordinate +files. The library handles both PDB and mmCIF format files. + +The Library also features an internal binary format, portable between different +platforms. This is achieved at uniformity of the Library's interface functions, +so that there is no difference in handling different formats. + +MMDB provides various high-level tools for working with coordinate files, +including reading and writing, orthogonal-fractional transforms, generation of +symmetry mates, editing the molecular structure and more. + +MMDB is written by Eugene Krissinel, and is distributed as a part of the CCP4 +suite. This project maintains a current stand-alone version of the library. + +WWW: https://launchpad.net/mmd Property changes on: head/science/mmdb2/pkg-descr ___________________________________________________________________ Added: fbsd:nokeywords ## -0,0 +1 ## +yes \ No newline at end of property Added: svn:eol-style ## -0,0 +1 ## +native \ No newline at end of property Added: svn:mime-type ## -0,0 +1 ## +text/plain \ No newline at end of property Index: head/science/mmdb2/pkg-plist =================================================================== --- head/science/mmdb2/pkg-plist (nonexistent) +++ head/science/mmdb2/pkg-plist (revision 474143) @@ -0,0 +1,38 @@ +include/mmdb2/hybrid_36.h +include/mmdb2/mmdb_atom.h +include/mmdb2/mmdb_bondmngr.h +include/mmdb2/mmdb_chain.h +include/mmdb2/mmdb_cifdefs.h +include/mmdb2/mmdb_coormngr.h +include/mmdb2/mmdb_cryst.h +include/mmdb2/mmdb_defs.h +include/mmdb2/mmdb_ficif.h +include/mmdb2/mmdb_io_file.h +include/mmdb2/mmdb_io_stream.h +include/mmdb2/mmdb_machine_.h +include/mmdb2/mmdb_manager.h +include/mmdb2/mmdb_mask.h +include/mmdb2/mmdb_math_.h +include/mmdb2/mmdb_math_align.h +include/mmdb2/mmdb_math_bfgsmin.h +include/mmdb2/mmdb_math_fft.h +include/mmdb2/mmdb_math_graph.h +include/mmdb2/mmdb_math_linalg.h +include/mmdb2/mmdb_math_rand.h +include/mmdb2/mmdb_mattype.h +include/mmdb2/mmdb_mmcif_.h +include/mmdb2/mmdb_model.h +include/mmdb2/mmdb_root.h +include/mmdb2/mmdb_rwbrook.h +include/mmdb2/mmdb_selmngr.h +include/mmdb2/mmdb_seqsuperpose.h +include/mmdb2/mmdb_symop.h +include/mmdb2/mmdb_tables.h +include/mmdb2/mmdb_title.h +include/mmdb2/mmdb_uddata.h +include/mmdb2/mmdb_utils.h +include/mmdb2/mmdb_xml_.h +lib/libmmdb2.so +lib/libmmdb2.so.0 +lib/libmmdb2.so.0.0.0 +libdata/pkgconfig/mmdb2.pc Property changes on: head/science/mmdb2/pkg-plist ___________________________________________________________________ Added: fbsd:nokeywords ## -0,0 +1 ## +yes \ No newline at end of property Added: svn:eol-style ## -0,0 +1 ## +native \ No newline at end of property Added: svn:mime-type ## -0,0 +1 ## +text/plain \ No newline at end of property