82a5a6cdc134525811d170351371b2b20d119bf7
managing_install.md
... | ... | @@ -15,7 +15,7 @@ Software installation and update are initiated from your local server at your si |
15 | 15 | |
16 | 16 | | Installation Requirements | | |
17 | 17 | | ------------------------- | ----------------------------------------------------| |
18 | -| Hard Drive Space | 250 GB required | |
|
18 | +| Hard Drive Space | ~400 GB required | |
|
19 | 19 | | Operating System | Linux, OS X and other UNIX | |
20 | 20 | | Privileges | Root account (Linux) or Administrator account (Mac) | |
21 | 21 | | network | Outbound http, rsync (ports 80 and 873, 8080) | |
... | ... | @@ -24,9 +24,11 @@ Software installation and update are initiated from your local server at your si |
24 | 24 | ### Approximate size per Branch |
25 | 25 | | Branch | size | |
26 | 26 | | ------------ | ------ | |
27 | -| i386-mac | 86Gb | |
|
28 | -| x86_64-linux | 105Gb | |
|
29 | -| shared files | 12Gb | |
|
27 | +| i386-mac | 175Gb | |
|
28 | +| x86_64-linux | 210Gb | |
|
29 | +| shared files | 18Gb | |
|
30 | + |
|
31 | +[Size breakdown of titles in a typical installation](size_graph.md) |
|
30 | 32 | |
31 | 33 | Email [accounts@sbgrid.org](accounts@sbgrid.org) to request the installation script for the software. Be sure to include the following information in your email: |
32 | 34 |
size_graph.md
... | ... | @@ -0,0 +1,659 @@ |
1 | +## Size breakdown for a typical SBGrid installation -- 20161201 |
|
2 | + |
|
3 | +**Actual packages installed by site vary depending on licensing and requests. Packages can be removed on request.** |
|
4 | + |
|
5 | +``` |
|
6 | +210.8G x86_64-linux [++++++++++++++++++++++++++++++++++++++++++++++] |
|
7 | +173.2G i386-mac [+++++++++++++++++++++++++++++++++++++ ] |
|
8 | + 18.0G share [+++ ] |
|
9 | + 1.9K local [ ] |
|
10 | +``` |
|
11 | + |
|
12 | +### x86_64-linux ( 210.8G ) |
|
13 | +``` |
|
14 | + 24.5G schrodinger [+++++++++++++++++++++++++++++++++++] |
|
15 | + 16.6G rosetta [+++++++++++++++++++++++ ] |
|
16 | + 15.7G phenix [++++++++++++++++++++++ ] |
|
17 | + 10.5G ccp4 [++++++++++++++ ] |
|
18 | + 8.2G system [+++++++++++ ] |
|
19 | + 6.7G scipion [+++++++++ ] |
|
20 | + 6.2G ambertools [++++++++ ] |
|
21 | + 6.1G coot [++++++++ ] |
|
22 | + 5.8G orca [++++++++ ] |
|
23 | + 5.5G ilastik [+++++++ ] |
|
24 | + 5.3G pyrosetta [+++++++ ] |
|
25 | + 5.2G spider [+++++++ ] |
|
26 | + 4.9G anaconda [+++++++ ] |
|
27 | + 4.2G xplor [+++++ ] |
|
28 | + 3.9G nmrpipe [+++++ ] |
|
29 | + 3.7G xmipp [+++++ ] |
|
30 | + 3.5G molprobity [++++ ] |
|
31 | + 3.3G dials [++++ ] |
|
32 | + 3.1G divcon [++++ ] |
|
33 | + 3.0G ccp4mg [++++ ] |
|
34 | + 2.8G spring [+++ ] |
|
35 | + 2.6G dynamo [+++ ] |
|
36 | + 2.4G python [+++ ] |
|
37 | + 2.3G mageckvispr [+++ ] |
|
38 | + 2.2G atsas [+++ ] |
|
39 | + 2.2G chimera [+++ ] |
|
40 | + 2.2G pymol [+++ ] |
|
41 | + 2.1G eman2 [++ ] |
|
42 | + 2.1G relion [++ ] |
|
43 | + 1.9G blastplus [++ ] |
|
44 | + 1.7G rstudio [++ ] |
|
45 | + 1.6G geneious [++ ] |
|
46 | + 1.5G peet [++ ] |
|
47 | + 1.2G frealign [+ ] |
|
48 | + 1.1G csrosetta [+ ] |
|
49 | + 1.1G arp_warp [+ ] |
|
50 | + 1.1G imp [+ ] |
|
51 | + 1.1G iplt [+ ] |
|
52 | + 1.0G cns [+ ] |
|
53 | + 1.0G bsoft [+ ] |
|
54 | +998.6M haddock [+ ] |
|
55 | +968.3M ccpnmr [+ ] |
|
56 | +933.4M buster [+ ] |
|
57 | +826.3M shiftx2 [+ ] |
|
58 | +819.2M emboss [+ ] |
|
59 | +812.9M autoproc [+ ] |
|
60 | +807.6M em2em [+ ] |
|
61 | +783.1M mgltools [+ ] |
|
62 | +719.1M whatif [+ ] |
|
63 | +717.9M rcsbtools [+ ] |
|
64 | +702.1M imagic [ ] |
|
65 | +643.8M r [ ] |
|
66 | +612.8M whatcheck [ ] |
|
67 | +599.4M qt [ ] |
|
68 | +575.7M vlion [ ] |
|
69 | +560.3M fiji [ ] |
|
70 | +532.9M imagemagick [ ] |
|
71 | +494.4M 3dna [ ] |
|
72 | +472.7M caver [ ] |
|
73 | +470.3M shelx-2013 [ ] |
|
74 | +442.1M balbes [ ] |
|
75 | +427.7M mrc [ ] |
|
76 | +416.9M ultrascan3 [ ] |
|
77 | +408.4M gromacs [ ] |
|
78 | +405.6M relax [ ] |
|
79 | +401.7M talosn [ ] |
|
80 | +387.0M pdb_redo [ ] |
|
81 | +381.8M hkl [ ] |
|
82 | +374.6M dtrek_free [ ] |
|
83 | +358.3M imod [ ] |
|
84 | +352.1M motioncorr [ ] |
|
85 | +334.9M modeller [ ] |
|
86 | +333.2M 2dx [ ] |
|
87 | +313.6M gorgon [ ] |
|
88 | +297.7M perl [ ] |
|
89 | +257.6M albula [ ] |
|
90 | +251.1M simple [ ] |
|
91 | +235.0M lafire [ ] |
|
92 | +225.9M arcimboldo_lite [ ] |
|
93 | +219.0M mifit [ ] |
|
94 | +215.6M apbs [ ] |
|
95 | +210.9M openbabel [ ] |
|
96 | +209.4M imagej [ ] |
|
97 | +206.8M solve [ ] |
|
98 | +204.0M cryoemtools [ ] |
|
99 | +192.6M shelx [ ] |
|
100 | +190.1M theseus [ ] |
|
101 | +188.9M crystfel [ ] |
|
102 | +188.6M caver_analyst [ ] |
|
103 | +186.5M avogadro [ ] |
|
104 | +179.5M norma [ ] |
|
105 | +179.4M blast [ ] |
|
106 | +177.5M sassie [ ] |
|
107 | +175.3M namd [ ] |
|
108 | +169.4M jalview [ ] |
|
109 | +167.2M vmd [ ] |
|
110 | +162.8M specview [ ] |
|
111 | +158.1M gctf [ ] |
|
112 | +154.4M mafft [ ] |
|
113 | +153.6M imod_nma [ ] |
|
114 | +153.3M tigris [ ] |
|
115 | +152.7M ctffind4 [ ] |
|
116 | +147.9M pytom [ ] |
|
117 | +144.8M tcltk [ ] |
|
118 | +139.8M frodock [ ] |
|
119 | +132.1M imosflm [ ] |
|
120 | +131.7M aria [ ] |
|
121 | +131.0M spire [ ] |
|
122 | +130.4M raw [ ] |
|
123 | +127.2M fuda [ ] |
|
124 | +126.7M openmm [ ] |
|
125 | +123.1M fasta [ ] |
|
126 | +120.5M igv [ ] |
|
127 | +117.8M unio [ ] |
|
128 | +106.4M gamma [ ] |
|
129 | +102.3M breseq [ ] |
|
130 | +100.3M imodfit [ ] |
|
131 | + 97.4M prospect [ ] |
|
132 | + 89.6M urox [ ] |
|
133 | + 88.6M xdsgui [ ] |
|
134 | + 86.8M emip [ ] |
|
135 | + 85.7M wxpython [ ] |
|
136 | + 79.5M tcoffee [ ] |
|
137 | + 77.3M vmd-xplor [ ] |
|
138 | + 76.7M gnuplot [ ] |
|
139 | + 73.3M cara [ ] |
|
140 | + 72.6M sparky [ ] |
|
141 | + 71.4M xds [ ] |
|
142 | + 69.7M ghostscript [ ] |
|
143 | + 68.5M suprim [ ] |
|
144 | + 67.0M protomo [ ] |
|
145 | + 66.8M globus_connect_personal [ ] |
|
146 | + 66.7M rsref [ ] |
|
147 | + 65.8M eman [ ] |
|
148 | + 60.3M priism [ ] |
|
149 | + 57.1M mosflm [ ] |
|
150 | + 56.7M pdb2pqr [ ] |
|
151 | + 55.7M como [ ] |
|
152 | + 55.5M gefrealign [ ] |
|
153 | + 54.1M auto3dem [ ] |
|
154 | + 48.3M mag_distortion [ ] |
|
155 | + 47.9M dock [ ] |
|
156 | + 47.5M bnp [ ] |
|
157 | + 47.4M dps [ ] |
|
158 | + 46.4M unblur [ ] |
|
159 | + 45.6M ultrascan [ ] |
|
160 | + 45.4M saxsview [ ] |
|
161 | + 44.0M mmtsb [ ] |
|
162 | + 42.1M ruby [ ] |
|
163 | + 42.1M gerard [ ] |
|
164 | + 41.7M resmap [ ] |
|
165 | + 40.7M simulaid [ ] |
|
166 | + 40.3M refmac [ ] |
|
167 | + 40.0M nmrview [ ] |
|
168 | + 39.5M staden [ ] |
|
169 | + 35.8M mead [ ] |
|
170 | + 34.1M graphviz [ ] |
|
171 | + 33.0M appion [ ] |
|
172 | + 32.7M sharp [ ] |
|
173 | + 32.3M scatter [ ] |
|
174 | + 30.7M stamp [ ] |
|
175 | + 30.3M pymmlib [ ] |
|
176 | + 29.9M profphd [ ] |
|
177 | + 29.5M fpocket [ ] |
|
178 | + 29.5M eden [ ] |
|
179 | + 28.3M procheck [ ] |
|
180 | + 28.1M ringer [ ] |
|
181 | + 27.9M sam [ ] |
|
182 | + 27.2M phases [ ] |
|
183 | + 26.5M scwrl3 [ ] |
|
184 | + 26.1M summovie [ ] |
|
185 | + 25.6M miso [ ] |
|
186 | + 25.3M ctf [ ] |
|
187 | + 25.0M rasmol [ ] |
|
188 | + 23.2M ihrsr [ ] |
|
189 | + 22.1M r2r [ ] |
|
190 | + 21.7M nessy [ ] |
|
191 | + 21.6M finddqe [ ] |
|
192 | + 21.6M zephyr [ ] |
|
193 | + 21.5M snb [ ] |
|
194 | + 21.4M scwrl4 [ ] |
|
195 | + 20.1M wattos [ ] |
|
196 | + 20.1M rdock [ ] |
|
197 | + 19.7M bbhp [ ] |
|
198 | + 19.3M concoord [ ] |
|
199 | + 18.4M hole [ ] |
|
200 | + 18.2M clustal [ ] |
|
201 | + 18.2M rsref2000 [ ] |
|
202 | + 17.7M escet [ ] |
|
203 | + 17.7M adxv [ ] |
|
204 | + 17.6M phylip [ ] |
|
205 | + 17.4M cmview [ ] |
|
206 | + 17.2M replace [ ] |
|
207 | + 17.1M direx [ ] |
|
208 | + 17.0M mole [ ] |
|
209 | + 16.5M redcat [ ] |
|
210 | + 16.3M remediator [ ] |
|
211 | + 16.2M molmol [ ] |
|
212 | + 16.0M mrtailor [ ] |
|
213 | + 15.5M xdrawchem [ ] |
|
214 | + 15.5M dssp [ ] |
|
215 | + 15.3M ligplus [ ] |
|
216 | + 15.2M knuspr [ ] |
|
217 | + 15.2M gautomatch [ ] |
|
218 | + 15.0M main [ ] |
|
219 | + 14.5M situs [ ] |
|
220 | + 14.2M promals [ ] |
|
221 | + 14.1M xeasy [ ] |
|
222 | + 13.6M epmr [ ] |
|
223 | + 13.4M assemble2 [ ] |
|
224 | + 13.4M o [ ] |
|
225 | + 13.2M rnamlview [ ] |
|
226 | + 13.2M xdsme [ ] |
|
227 | + 12.7M povray [ ] |
|
228 | + 12.5M pft3dr [ ] |
|
229 | + 11.9M phoelix [ ] |
|
230 | + 11.7M mcce [ ] |
|
231 | + 11.6M modelfree [ ] |
|
232 | + 11.4M particle [ ] |
|
233 | + 11.4M finchtv [ ] |
|
234 | + 11.3M tensor [ ] |
|
235 | + 10.8M samtools [ ] |
|
236 | + 10.7M frealix [ ] |
|
237 | + 10.5M hydropro [ ] |
|
238 | + 10.5M dyndom3d [ ] |
|
239 | + 10.0M x3d [ ] |
|
240 | + 9.9M espript [ ] |
|
241 | + 9.9M raster3d [ ] |
|
242 | + 9.3M embfactor [ ] |
|
243 | + 9.3M entangle [ ] |
|
244 | + 9.0M netblast [ ] |
|
245 | + 8.9M bcftools [ ] |
|
246 | + 8.8M isthms [ ] |
|
247 | + 8.5M amps [ ] |
|
248 | + 8.3M rnastructure [ ] |
|
249 | + 7.9M elves [ ] |
|
250 | + 7.3M spdbv [ ] |
|
251 | + 7.0M module [ ] |
|
252 | + 6.8M electra [ ] |
|
253 | + 6.2M pgplot [ ] |
|
254 | + 6.1M motioncor2 [ ] |
|
255 | + 6.0M a2ps [ ] |
|
256 | + 5.9M aqua [ ] |
|
257 | + 5.6M xv [ ] |
|
258 | + 5.6M nucplot [ ] |
|
259 | + 5.6M somore [ ] |
|
260 | + 5.2M delphi [ ] |
|
261 | + 5.1M grace [ ] |
|
262 | + 5.0M veda [ ] |
|
263 | + 4.6M plotutils [ ] |
|
264 | + 4.4M weblogo [ ] |
|
265 | + 4.3M curvesplus [ ] |
|
266 | + 4.2M xdsi [ ] |
|
267 | + 4.2M dino [ ] |
|
268 | + 4.1M zdock [ ] |
|
269 | + 4.0M vina [ ] |
|
270 | + 3.8M solvate [ ] |
|
271 | + 3.6M nedit [ ] |
|
272 | + 3.6M ace2 [ ] |
|
273 | + 3.6M xdsstat [ ] |
|
274 | + 3.3M ssaha2 [ ] |
|
275 | + 3.3M mmc [ ] |
|
276 | + 3.2M h5toxds [ ] |
|
277 | + 3.2M dyndom [ ] |
|
278 | + 3.1M scc [ ] |
|
279 | + 3.1M pdbstat [ ] |
|
280 | + 3.1M superfold [ ] |
|
281 | + 2.7M qushape [ ] |
|
282 | + 2.6M signature [ ] |
|
283 | + 2.6M aline [ ] |
|
284 | + 2.5M alscript [ ] |
|
285 | + 2.5M mammoth-mult [ ] |
|
286 | + 2.5M primer3 [ ] |
|
287 | + 2.4M tiltpicker [ ] |
|
288 | + 2.3M dssr [ ] |
|
289 | + 2.1M dogpicker [ ] |
|
290 | + 2.1M bfactor [ ] |
|
291 | + 2.0M hbplus [ ] |
|
292 | + 2.0M surfv [ ] |
|
293 | + 2.0M plotmtv [ ] |
|
294 | + 2.0M pales [ ] |
|
295 | + 1.9M quilt [ ] |
|
296 | + 1.9M diffmap [ ] |
|
297 | + 1.8M crop [ ] |
|
298 | + 1.8M pdbfixer [ ] |
|
299 | + 1.8M xdscc12 [ ] |
|
300 | + 1.7M bin2mrc [ ] |
|
301 | + 1.7M rnaview [ ] |
|
302 | + 1.6M best [ ] |
|
303 | + 1.6M molscript [ ] |
|
304 | + 1.5M wasp [ ] |
|
305 | + 1.5M xds-viewer [ ] |
|
306 | + 1.5M madbend [ ] |
|
307 | + 1.4M curves [ ] |
|
308 | + 1.4M xrayview [ ] |
|
309 | + 1.4M reduce [ ] |
|
310 | + 1.3M autodock [ ] |
|
311 | + 1.3M probe [ ] |
|
312 | + 1.3M randomize [ ] |
|
313 | + 1.2M untangle [ ] |
|
314 | + 1.2M raspnmr [ ] |
|
315 | + 1.2M cpmgfit [ ] |
|
316 | + 1.0M muscle [ ] |
|
317 | +992.2K surfnet [ ] |
|
318 | +990.8K pdb-care [ ] |
|
319 | +926.8K hkl2map [ ] |
|
320 | +911.1K rmerge [ ] |
|
321 | +895.0K ligplot [ ] |
|
322 | +891.9K naccess [ ] |
|
323 | +821.0K hydronmr [ ] |
|
324 | +738.2K dowser [ ] |
|
325 | +641.8K bobscript [ ] |
|
326 | +635.8K rmeasure [ ] |
|
327 | +582.8K molphy [ ] |
|
328 | +539.8K qpack [ ] |
|
329 | +485.3K profit [ ] |
|
330 | +427.3K shapemapper [ ] |
|
331 | +416.5K samviewer [ ] |
|
332 | +367.0K probcons [ ] |
|
333 | +363.7K matt [ ] |
|
334 | +334.9K tkdiff [ ] |
|
335 | +297.1K mes [ ] |
|
336 | +212.2K amigos2 [ ] |
|
337 | +185.2K protskin [ ] |
|
338 | +124.1K nuccyl [ ] |
|
339 | + 77.4K yup [ ] |
|
340 | + 76.0K surfrace [ ] |
|
341 | + 63.9K fastmodelfree [ ] |
|
342 | + 23.7K pipe2xeasy [ ] |
|
343 | + 2.3K clustal-omega [ ] |
|
344 | + 109 pandas [ ] |
|
345 | + 108 numpy [ ] |
|
346 | + 107 pysam [ ] |
|
347 | + 106 pytz [ ] |
|
348 | + 95 rcrane [ ] |
|
349 | + 85 ccpnmr-chembuild [ ] |
|
350 | + 82 sparx [ ] |
|
351 | + 74 biopython [ ] |
|
352 | + 72 ipython [ ] |
|
353 | + 70 scipy [ ] |
|
354 | + 61 ebseq [ ] |
|
355 | + 34 bioperl [ ] |
|
356 | +``` |
|
357 | + |
|
358 | +### i386-mac ( 173.2G ) |
|
359 | + |
|
360 | +``` |
|
361 | + 25.8G schrodinger [+++++++++++++++++++++++++++++++++++++] |
|
362 | + 13.0G rosetta [++++++++++++++++++ ] |
|
363 | + 11.4G phenix [++++++++++++++++ ] |
|
364 | + 9.1G ccp4 [+++++++++++++ ] |
|
365 | + 8.8G pyrosetta [++++++++++++ ] |
|
366 | + 6.0G ambertools [++++++++ ] |
|
367 | + 5.3G orca [+++++++ ] |
|
368 | + 4.9G spring [+++++++ ] |
|
369 | + 4.1G ilastik [+++++ ] |
|
370 | + 3.8G anaconda [+++++ ] |
|
371 | + 3.8G spider [+++++ ] |
|
372 | + 3.4G csrosetta [++++ ] |
|
373 | + 3.3G pymol [++++ ] |
|
374 | + 3.2G python [++++ ] |
|
375 | + 3.2G molprobity [++++ ] |
|
376 | + 3.1G xmipp [++++ ] |
|
377 | + 2.8G nmrpipe [++++ ] |
|
378 | + 2.7G blastplus [+++ ] |
|
379 | + 2.5G system [+++ ] |
|
380 | + 2.5G ccp4mg [+++ ] |
|
381 | + 2.5G dials [+++ ] |
|
382 | + 2.5G atsas [+++ ] |
|
383 | + 2.4G xplor [+++ ] |
|
384 | + 2.3G chimera [+++ ] |
|
385 | + 1.6G mageckvispr [++ ] |
|
386 | + 1.6G relax [++ ] |
|
387 | + 1.4G geneious [+ ] |
|
388 | + 1.2G arp_warp [+ ] |
|
389 | + 1.2G coot [+ ] |
|
390 | + 1.1G ccpnmr [+ ] |
|
391 | + 1.1G cns [+ ] |
|
392 | + 1.1G whatcheck [+ ] |
|
393 | +1021.4M eman2 [+ ] |
|
394 | +1003.1M imp [+ ] |
|
395 | +990.7M shiftx2 [+ ] |
|
396 | +906.3M iplt [+ ] |
|
397 | +888.3M 2dx [+ ] |
|
398 | +862.8M mgltools [+ ] |
|
399 | +843.5M emboss [+ ] |
|
400 | +811.6M divcon [+ ] |
|
401 | +805.5M rcsbtools [+ ] |
|
402 | +802.7M em2em [+ ] |
|
403 | +705.1M specview [ ] |
|
404 | +701.8M r [ ] |
|
405 | +652.0M buster [ ] |
|
406 | +565.4M frealign [ ] |
|
407 | +555.9M modeller [ ] |
|
408 | +552.2M bsoft [ ] |
|
409 | +534.1M imod [ ] |
|
410 | +503.0M blast [ ] |
|
411 | +499.2M ultrascan3 [ ] |
|
412 | +496.2M 3dna [ ] |
|
413 | +483.4M solve [ ] |
|
414 | +472.7M caver [ ] |
|
415 | +466.7M gromacs [ ] |
|
416 | +463.5M fiji [ ] |
|
417 | +455.4M gorgon [ ] |
|
418 | +452.4M balbes [ ] |
|
419 | +428.3M dynamo [ ] |
|
420 | +395.1M talosn [ ] |
|
421 | +379.9M pymmlib [ ] |
|
422 | +372.0M hkl [ ] |
|
423 | +366.7M autoproc [ ] |
|
424 | +353.8M dssp [ ] |
|
425 | +335.7M imosflm [ ] |
|
426 | +330.9M qt [ ] |
|
427 | +325.0M relion [ ] |
|
428 | +323.8M mrc [ ] |
|
429 | +305.2M ultrascan [ ] |
|
430 | +301.2M rstudio [ ] |
|
431 | +296.9M simple [ ] |
|
432 | +274.7M albula [ ] |
|
433 | +273.7M avogadro [ ] |
|
434 | +254.0M imagemagick [ ] |
|
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|
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|
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655 | + 67 scipy [ ] |
|
656 | + 65 bioperl [ ] |
|
657 | + 65 pytz [ ] |
|
658 | + 57 ebseq [ ] |
|
659 | +``` |