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1 | Package:·gromacs-data | 1 | Package:·gromacs-data |
2 | Source:·gromacs | 2 | Source:·gromacs |
3 | Version:·2020.6-2 | 3 | Version:·2020.6-2 |
4 | Architecture:·all | 4 | Architecture:·all |
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9 | Conflicts:·gromacs-doc | 9 | Conflicts:·gromacs-doc |
10 | Replaces:·gromacs-doc | 10 | Replaces:·gromacs-doc |
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69 | ··<div·class="headertitle"> | 69 | ··<div·class="headertitle"> |
70 | <div·class="title">Module·dependency·graph·</div>··</div> | 70 | <div·class="title">Module·dependency·graph·</div>··</div> |
71 | </div><!--header--> | 71 | </div><!--header--> |
72 | <div·class="contents"> | 72 | <div·class="contents"> |
73 | <div·class="textblock"><p><a·class="anchor"·id="md_docs_doxygen_lib_modulegraph"></a></p> | 73 | <div·class="textblock"><p><a·class="anchor"·id="md_docs_doxygen_lib_modulegraph"></a></p> |
74 | <p>The·graph·below·shows·the·dependencies·between·the·source·code·modules,·computed·from·include·statements·in·the·code.·For·documented·modules·(those·that·do·not·have·a·gray·background),·clicking·on·the·module·takes·you·to·the·module·documentation.·Legend·for·the·graph·can·be·found·below·the·graph.</p> | 74 | <p>The·graph·below·shows·the·dependencies·between·the·source·code·modules,·computed·from·include·statements·in·the·code.·For·documented·modules·(those·that·do·not·have·a·gray·background),·clicking·on·the·module·takes·you·to·the·module·documentation.·Legend·for·the·graph·can·be·found·below·the·graph.</p> |
75 | <p><div·class="dotgraph"> | 75 | <p><div·class="dotgraph"> |
76 | <iframe·scrolling="no"·frameborder="0"·src="dot_module-deps.svg"·width="75 | 76 | <iframe·scrolling="no"·frameborder="0"·src="dot_module-deps.svg"·width="7552"·height="1880"><p><b>This·browser·is·not·able·to·show·SVG:·try·Firefox,·Chrome,·Safari,·or·Opera·instead.</b></p></iframe></div> |
77 | </p> | 77 | </p> |
78 | <h1><a·class="anchor"·id="autotoc_md39"></a> | 78 | <h1><a·class="anchor"·id="autotoc_md39"></a> |
79 | Legend</h1> | 79 | Legend</h1> |
80 | <p>The·graph·below·annotates·the·colors·and·line·styles·used·in·the·module·dependency·graph·above.·More·detailed·textual·annotation·is·below·the·graph.</p> | 80 | <p>The·graph·below·annotates·the·colors·and·line·styles·used·in·the·module·dependency·graph·above.·More·detailed·textual·annotation·is·below·the·graph.</p> |
81 | <div·class="dotgraph"> | 81 | <div·class="dotgraph"> |
82 | <iframe·scrolling="no"·frameborder="0"·src="dot_inline_dotgraph_2.svg"·width="440"·height="407"><p><b>This·browser·is·not·able·to·show·SVG:·try·Firefox,·Chrome,·Safari,·or·Opera·instead.</b></p></iframe></div> | 82 | <iframe·scrolling="no"·frameborder="0"·src="dot_inline_dotgraph_2.svg"·width="440"·height="407"><p><b>This·browser·is·not·able·to·show·SVG:·try·Firefox,·Chrome,·Safari,·or·Opera·instead.</b></p></iframe></div> |
83 | <p>Node·colors:·</p><dl> | 83 | <p>Node·colors:·</p><dl> |
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61 | and·Artem·Zhmurov.</p> | 61 | and·Artem·Zhmurov.</p> |
62 | <p>Mark·Abraham,·Berk·Hess,·David·van·der·Spoel,·and·Erik·Lindahl.</p> | 62 | <p>Mark·Abraham,·Berk·Hess,·David·van·der·Spoel,·and·Erik·Lindahl.</p> |
63 | <p>©·1991·–·2000:</p> | 63 | <p>©·1991·–·2000:</p> |
64 | <blockquote> | 64 | <blockquote> |
65 | <div><p>Department·of·Biophysical·Chemistry,·University·of·Groningen. | 65 | <div><p>Department·of·Biophysical·Chemistry,·University·of·Groningen. |
66 | Nijenborgh·4,·9747·AG·Groningen,·The·Netherlands.</p> | 66 | Nijenborgh·4,·9747·AG·Groningen,·The·Netherlands.</p> |
67 | </div></blockquote> | 67 | </div></blockquote> |
68 | <p>©·2001·–·202 | 68 | <p>©·2001·–·2024:</p> |
69 | <blockquote> | 69 | <blockquote> |
70 | <div><p>The·GROMACS·development·teams·at·the·Royal·Institute·of·Technology·and | 70 | <div><p>The·GROMACS·development·teams·at·the·Royal·Institute·of·Technology·and |
71 | Uppsala·University,·Sweden.</p> | 71 | Uppsala·University,·Sweden.</p> |
72 | </div></blockquote> | 72 | </div></blockquote> |
73 | <p>This·manual·is·not·complete·and·has·no·pretension·to·be·so·due | 73 | <p>This·manual·is·not·complete·and·has·no·pretension·to·be·so·due |
74 | to·lack·of·time·of·the·contributors·–·our·first·priority·is·to·improve | 74 | to·lack·of·time·of·the·contributors·–·our·first·priority·is·to·improve |
75 | the·software.·It·is·worked·on·continuously, | 75 | the·software.·It·is·worked·on·continuously, |
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25 | Meulenhoff,·Teemu·Murtola,·Szilárd·Páll,·Sander·Pronk,·Roland·Schulz,·Michael | 25 | Meulenhoff,·Teemu·Murtola,·Szilárd·Páll,·Sander·Pronk,·Roland·Schulz,·Michael |
26 | Shirts,·Alexey·Shvetsov,·Alfons·Sijbers,·Peter·Tieleman,·Teemu·Virolainen, | 26 | Shirts,·Alexey·Shvetsov,·Alfons·Sijbers,·Peter·Tieleman,·Teemu·Virolainen, |
27 | Christian·Wennberg,·Maarten·Wolf,·and·Artem·Zhmurov. | 27 | Christian·Wennberg,·Maarten·Wolf,·and·Artem·Zhmurov. |
28 | Mark·Abraham,·Berk·Hess,·David·van·der·Spoel,·and·Erik·Lindahl. | 28 | Mark·Abraham,·Berk·Hess,·David·van·der·Spoel,·and·Erik·Lindahl. |
29 | ©·1991·â·2000: | 29 | ©·1991·â·2000: |
30 | ·····Department·of·Biophysical·Chemistry,·University·of·Groningen. | 30 | ·····Department·of·Biophysical·Chemistry,·University·of·Groningen. |
31 | ·····Nijenborgh·4,·9747·AG·Groningen,·The·Netherlands. | 31 | ·····Nijenborgh·4,·9747·AG·Groningen,·The·Netherlands. |
32 | ©·2001·â·202 | 32 | ©·2001·â·2024: |
33 | ·····The·GROMACS·development·teams·at·the·Royal·Institute·of·Technology | 33 | ·····The·GROMACS·development·teams·at·the·Royal·Institute·of·Technology |
34 | ·····and·Uppsala·University,·Sweden. | 34 | ·····and·Uppsala·University,·Sweden. |
35 | This·manual·is·not·complete·and·has·no·pretension·to·be·so·due·to·lack·of·time | 35 | This·manual·is·not·complete·and·has·no·pretension·to·be·so·due·to·lack·of·time |
36 | of·the·contributors·â·our·first·priority·is·to·improve·the·software.·It·is | 36 | of·the·contributors·â·our·first·priority·is·to·improve·the·software.·It·is |
37 | worked·on·continuously,·which·in·some·cases·might·mean·the·information·is·not | 37 | worked·on·continuously,·which·in·some·cases·might·mean·the·information·is·not |
38 | entirely·correct. | 38 | entirely·correct. |
39 | Comments·on·form·and·content·are·welcome,·please·send·them·to·one·of·the | 39 | Comments·on·form·and·content·are·welcome,·please·send·them·to·one·of·the |
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909 | ········"2015":·[144,·145], | 909 | ········"2015":·[144,·145], |
910 | ········"2016":·[1,·145,·160,·161,·167,·168,·169,·170,·171,·178,·182], | 910 | ········"2016":·[1,·145,·160,·161,·167,·168,·169,·170,·171,·178,·182], |
911 | ········"2017":·[36,·145,·157,·158,·160,·182,·194], | 911 | ········"2017":·[36,·145,·157,·158,·160,·182,·194], |
912 | ········"2018":·[1,·25,·159,·176,·182,·183,·184,·185,·186,·187,·189,·191,·193,·201,·226], | 912 | ········"2018":·[1,·25,·159,·176,·182,·183,·184,·185,·186,·187,·189,·191,·193,·201,·226], |
913 | ········"2019":·[2,·4,·28,·145,·171,·172,·173,·174,·191,·197,·198,·199,·200,·201,·226], | 913 | ········"2019":·[2,·4,·28,·145,·171,·172,·173,·174,·191,·197,·198,·199,·200,·201,·226], |
914 | ········"2020":·[2,·24,·26,·36,·144,·187,·206], | 914 | ········"2020":·[2,·24,·26,·36,·144,·187,·206], |
915 | ········"2021":·[198,·201,·202,·212], | 915 | ········"2021":·[198,·201,·202,·212], |
916 | ········"2024":·174, | ||
917 | ········"202 | 916 | ········"2024":·[144,·174], |
917 | ········"2025":·155, | ||
918 | ········"2026":·181, | 918 | ········"2026":·181, |
919 | ········"2027":·181, | 919 | ········"2027":·181, |
920 | ········"2028":·181, | 920 | ········"2028":·181, |
921 | ········"2029":·155, | 921 | ········"2029":·155, |
922 | ········"2031":·174, | 922 | ········"2031":·174, |
923 | ········"2032":·[45,·145,·174], | 923 | ········"2032":·[45,·145,·174], |
924 | ········"2033":·155, | 924 | ········"2033":·155, |
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2 | -rw-r--r--···0········0········0·····4172·2021-03-29·04:45:03.000000·control.tar.xz | 2 | -rw-r--r--···0········0········0·····4172·2021-03-29·04:45:03.000000·control.tar.xz |
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136 | -rw-r--r--···0·root·········(0)·root·········(0)······936·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gmxapi/gmxapi-release.cmake | 136 | -rw-r--r--···0·root·········(0)·root·········(0)······936·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gmxapi/gmxapi-release.cmake |
137 | -rw-r--r--···0·root·········(0)·root·········(0)·····3281·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gmxapi/gmxapi.cmake | 137 | -rw-r--r--···0·root·········(0)·root·········(0)·····3281·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gmxapi/gmxapi.cmake |
138 | drwxr-xr-x···0·root·········(0)·root·········(0)········0·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gromacs/ | 138 | drwxr-xr-x···0·root·········(0)·root·········(0)········0·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gromacs/ |
139 | -rw-r--r--···0·root·········(0)·root·········(0)·····2025·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gromacs/gromacs-config-version.cmake | 139 | -rw-r--r--···0·root·········(0)·root·········(0)·····2025·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gromacs/gromacs-config-version.cmake |
140 | -rw-r--r--···0·root·········(0)·root·········(0)·····6215·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gromacs/gromacs-config.cmake | 140 | -rw-r--r--···0·root·········(0)·root·········(0)·····6215·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gromacs/gromacs-config.cmake |
141 | -rw-r--r--···0·root·········(0)·root·········(0)·····231 | 141 | -rw-r--r--···0·root·········(0)·root·········(0)·····2314·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gromacs/gromacs-toolchain.cmake |
142 | -rw-r--r--···0·root·········(0)·root·········(0)······851·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gromacs/libgromacs-release.cmake | 142 | -rw-r--r--···0·root·········(0)·root·········(0)······851·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gromacs/libgromacs-release.cmake |
143 | -rw-r--r--···0·root·········(0)·root·········(0)·····3592·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gromacs/libgromacs.cmake | 143 | -rw-r--r--···0·root·········(0)·root·········(0)·····3592·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gromacs/libgromacs.cmake |
144 | drwxr-xr-x···0·root·········(0)·root·········(0)········0·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gromacs_d/ | 144 | drwxr-xr-x···0·root·········(0)·root·········(0)········0·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gromacs_d/ |
145 | -rw-r--r--···0·root·········(0)·root·········(0)·····231 | 145 | -rw-r--r--···0·root·········(0)·root·········(0)·····2314·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gromacs_d/gromacs-toolchain_d.cmake |
146 | -rw-r--r--···0·root·········(0)·root·········(0)·····2025·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gromacs_d/gromacs_d-config-version.cmake | 146 | -rw-r--r--···0·root·········(0)·root·········(0)·····2025·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gromacs_d/gromacs_d-config-version.cmake |
147 | -rw-r--r--···0·root·········(0)·root·········(0)·····6220·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gromacs_d/gromacs_d-config.cmake | 147 | -rw-r--r--···0·root·········(0)·root·········(0)·····6220·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gromacs_d/gromacs_d-config.cmake |
148 | -rw-r--r--···0·root·········(0)·root·········(0)······857·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gromacs_d/libgromacs-release.cmake | 148 | -rw-r--r--···0·root·········(0)·root·········(0)······857·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gromacs_d/libgromacs-release.cmake |
149 | -rw-r--r--···0·root·········(0)·root·········(0)·····3592·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gromacs_d/libgromacs.cmake | 149 | -rw-r--r--···0·root·········(0)·root·········(0)·····3592·2021-03-29·04:45:03.000000·./usr/share/gromacs/cmake/gromacs_d/libgromacs.cmake |
150 | drwxr-xr-x···0·root·········(0)·root·········(0)········0·2021-03-29·04:45:03.000000·./usr/share/gromacs/template/ | 150 | drwxr-xr-x···0·root·········(0)·root·········(0)········0·2021-03-29·04:45:03.000000·./usr/share/gromacs/template/ |
151 | -rw-r--r--···0·root·········(0)·root·········(0)·····1851·2021-03-04·14:49:48.000000·./usr/share/gromacs/template/CMakeLists.txt | 151 | -rw-r--r--···0·root·········(0)·root·········(0)·····1851·2021-03-04·14:49:48.000000·./usr/share/gromacs/template/CMakeLists.txt |
152 | -rw-r--r--···0·root·········(0)·root·········(0)·····1196·2021-03-04·14:49:48.000000·./usr/share/gromacs/template/Makefile.pkg | 152 | -rw-r--r--···0·root·········(0)·root·········(0)·····1196·2021-03-04·14:49:48.000000·./usr/share/gromacs/template/Makefile.pkg |
Offset 30, 15 lines modified | Offset 30, 15 lines modified | ||
30 | #·official·version·at·http://www.gromacs.org. | 30 | #·official·version·at·http://www.gromacs.org. |
31 | # | 31 | # |
32 | #·To·help·us·fund·GROMACS·development,·we·humbly·ask·that·you·cite | 32 | #·To·help·us·fund·GROMACS·development,·we·humbly·ask·that·you·cite |
33 | #·the·research·papers·on·the·package.·Check·out·http://www.gromacs.org. | 33 | #·the·research·papers·on·the·package.·Check·out·http://www.gromacs.org. |
34 | #·Setting·CMAKE_SYSTEM_NAME·tells·CMake·we·are·cross·compiling. | 34 | #·Setting·CMAKE_SYSTEM_NAME·tells·CMake·we·are·cross·compiling. |
35 | SET(CMAKE_SYSTEM_NAME·"Linux") | 35 | SET(CMAKE_SYSTEM_NAME·"Linux") |
36 | SET(CMAKE_SYSTEM_VERSION·"6.1.0-17- | 36 | SET(CMAKE_SYSTEM_VERSION·"6.1.0-17-686-pae") |
37 | SET(CMAKE_C_COMPILER··"/usr/bin/cc") | 37 | SET(CMAKE_C_COMPILER··"/usr/bin/cc") |
38 | SET(CMAKE_CXX_COMPILER·"/usr/bin/c++") | 38 | SET(CMAKE_CXX_COMPILER·"/usr/bin/c++") |
39 | SET(CMAKE_LINKER·"/usr/bin/ld") | 39 | SET(CMAKE_LINKER·"/usr/bin/ld") |
40 | #·The·following·are·only·relevant·in·Mac·OS·X·environments. | 40 | #·The·following·are·only·relevant·in·Mac·OS·X·environments. |
41 | SET(CMAKE_OSX_DEPLOYMENT_TARGET·""·CACHE·STRING·"OS·X·Deployment·target"·FORCE) | 41 | SET(CMAKE_OSX_DEPLOYMENT_TARGET·""·CACHE·STRING·"OS·X·Deployment·target"·FORCE) |
42 | SET(CMAKE_OSX_ARCHITECTURES·"") | 42 | SET(CMAKE_OSX_ARCHITECTURES·"") |
43 | #·Ref:·https://stackoverflow.com/questions/32414112/setting-sdk-on-cross-compilation-to-osx-in-cmake | 43 | #·Ref:·https://stackoverflow.com/questions/32414112/setting-sdk-on-cross-compilation-to-osx-in-cmake |
Offset 30, 15 lines modified | Offset 30, 15 lines modified | ||
30 | #·official·version·at·http://www.gromacs.org. | 30 | #·official·version·at·http://www.gromacs.org. |
31 | # | 31 | # |
32 | #·To·help·us·fund·GROMACS·development,·we·humbly·ask·that·you·cite | 32 | #·To·help·us·fund·GROMACS·development,·we·humbly·ask·that·you·cite |
33 | #·the·research·papers·on·the·package.·Check·out·http://www.gromacs.org. | 33 | #·the·research·papers·on·the·package.·Check·out·http://www.gromacs.org. |
34 | #·Setting·CMAKE_SYSTEM_NAME·tells·CMake·we·are·cross·compiling. | 34 | #·Setting·CMAKE_SYSTEM_NAME·tells·CMake·we·are·cross·compiling. |
35 | SET(CMAKE_SYSTEM_NAME·"Linux") | 35 | SET(CMAKE_SYSTEM_NAME·"Linux") |
36 | SET(CMAKE_SYSTEM_VERSION·"6.1.0-17- | 36 | SET(CMAKE_SYSTEM_VERSION·"6.1.0-17-686-pae") |
37 | SET(CMAKE_C_COMPILER··"/usr/bin/cc") | 37 | SET(CMAKE_C_COMPILER··"/usr/bin/cc") |
38 | SET(CMAKE_CXX_COMPILER·"/usr/bin/c++") | 38 | SET(CMAKE_CXX_COMPILER·"/usr/bin/c++") |
39 | SET(CMAKE_LINKER·"/usr/bin/ld") | 39 | SET(CMAKE_LINKER·"/usr/bin/ld") |
40 | #·The·following·are·only·relevant·in·Mac·OS·X·environments. | 40 | #·The·following·are·only·relevant·in·Mac·OS·X·environments. |
41 | SET(CMAKE_OSX_DEPLOYMENT_TARGET·""·CACHE·STRING·"OS·X·Deployment·target"·FORCE) | 41 | SET(CMAKE_OSX_DEPLOYMENT_TARGET·""·CACHE·STRING·"OS·X·Deployment·target"·FORCE) |
42 | SET(CMAKE_OSX_ARCHITECTURES·"") | 42 | SET(CMAKE_OSX_ARCHITECTURES·"") |
43 | #·Ref:·https://stackoverflow.com/questions/32414112/setting-sdk-on-cross-compilation-to-osx-in-cmake | 43 | #·Ref:·https://stackoverflow.com/questions/32414112/setting-sdk-on-cross-compilation-to-osx-in-cmake |