Install Rosetta-3.1 and CS-Rosetta on Mac OS 10.6
A note of my installation in the last 3 days.
Download Rosetta Stone TOTALe - (Mac 10.6.8) Download Rosetta Stone Language Learning - (Mac 10.7 or higher) Installation Steps: Once downloaded, double click the update.exe to begin the installation. Installation steps: Once downloaded, double click the Rosetta Stone.dmg. Then double click the Rosetta Stone.pkg to begin installation. This can be accomplished by holding down 2 and 3 during boot on computers running Mac OS X 10.6 or Mac OS X 10.7. The 32-bit kernel is not available with Mac OS X 10.8. Rosetta is no longer supported in Mac OS X 10.7 or later. Because previous versions of NI-488.2 use Rosetta, some components will not work even if booted into 32-bit kernel mode. Download Rosetta Stone TOTALe - (Windows XP SP3, Windows Vista SP2) Download Rosetta Stone Language Learning - (Windows 7 or higher) Download Rosetta Stone TOTALe - (Mac 10.6.8) Download Rosetta Stone Language Learning - (Mac 10.7 or higher) Installation Steps: Once downloaded, double click the update.exe to begin the installation. X-FireWire Firmware for Mac: Rosetta 200 Rev E Includes X-FireWire Firmware, X-FireWire Updater, X-FireWire User’s Guide, Maestro Software and Read Me Download.
Machine: iMac 3.06 GHz, core i3, 4 GB Ram , OS 10.6.4
Part A –Rosetta 3.1
First download Rosetta 3.1, all the bundle stuff.
–uncompress the bundle file, and keep uncompressing all “.tgz” files
Then download corrections for rosetta_source at here: http://zinc.ucsf.edu/~colin/snow_leopard_tools.tar.gz
(see this discussion topic at Rosetta forum : node 1705)
–go to rosetta_source, uncompress the snow_leopard_tool.tar.gz and the uncompressed files will automatically overwrite the files.
— use “scons” to compile and install by command: “scons bin mode=release”
The compilation takes approximately 1 hour.
NOTE: For Mac users, you can install scons by using Fink.
Second, you need g77 to compile the rosetta_fragments, but even using the unstable packages provided in fink, the x86_64 version of g77 for OS 10.6 is not available. I went to “high performance computing for mac os X” to download g77-3.4 which is a binary file already. No need to compile it by yourself.
(I tried gfortran, a lot of errors occurred, but g77 does good job).
After getting g77 works, go to resetta_fragments/nnmake and type make to have pNNMAKE.gnu compiled. This is required for CS-Rosetta,too.
Part B–CS-Rosetta
First, download the all required compressed file at CS-Rosetta official site.
–chmod 711 install.com if this is not executable.
— run ./install.com and the script will ask you to provide the full path of your rosetta-3.1 (not the path of rosetta_source).
You should see error messages that the install script cannot find some Rosetta executable files and my solution is to make soft links at “rosetta_source/bin”
Do this soft link before installing CS-rosetta.
ln -s AbinitioRelax.macosgccrelease AbinitioRelax.linuxgccrelease
ln -s extract_pdbs.macosgccrelease extract_pdbs.linuxgccrelease
— After installation, you should see something like “no errors found” and put the environmental setup in your csh or tcsh and source/update the shell.
To test the CS-Rosetta, I directly go to examples/input, type: runCSRjob3.com gb3.tab and I got:
usersxxx:input>runCSRjob3.com gb3
gb3.pdb gb3.tab
lusersxxx:input>runCSRjob3.com gb3.tab
pre-checking input chemcial shift data …
*** Shift outlier: 14 G C Secondary Shift: -3.765 Limit: -3.725
*** Shift outlier: 15 E HA Secondary Shift: 1.313 Limit: 1.047
*** Shift outlier: 17 T HA Secondary Shift: 1.498 Limit: 1.047
*** Shift outlier: 19 K HA Secondary Shift: 1.070 Limit: 1.047
*** Shift outlier: 25 T CA Secondary Shift: 4.791 Limit: 4.660
*** Shift outlier: 27 E HA Secondary Shift: -1.698 Limit: -1.080
*** Shift outlier: 29 A C Secondary Shift: 4.021 Limit: 3.727
*** Shift outlier: 35 N C Secondary Shift: 4.104 Limit: 3.727
*** Shift outlier: 51 T HA Secondary Shift: 1.197 Limit: 1.047
*** Shift outlier: 52 F HA Secondary Shift: 1.164 Limit: 1.047
*** Shift outlier: 54 V CA Secondary Shift: -4.355 Limit: -3.445
*** Shift outlier: 56 E N Secondary Shift: 10.828 Limit: 10.047
*** C shift referecing offset: -1.289 ppm
Checking and preparing files …
MFR fragments searching … (may take a few hours…)
Done! MFR fragment tables farg9.t000.mfr.tab and frag3.t000.mfr.tab generated.
Converting to ROSETTA fragments …
9mer fragments …
Checking MFR Fragments Candidates …
200 fragments candidates for target fragment 1-9
200 fragments candidates for target fragment 2-10
200 fragments candidates for target fragment 3-11
200 fragments candidates for target fragment 4-12
200 fragments candidates for target fragment 5-13
200 fragments candidates for target fragment 6-14
200 fragments candidates for target fragment 7-15
200 fragments candidates for target fragment 8-16
200 fragments candidates for target fragment 9-17
200 fragments candidates for target fragment 10-18
200 fragments candidates for target fragment 11-19
200 fragments candidates for target fragment 12-20
200 fragments candidates for target fragment 13-21
200 fragments candidates for target fragment 14-22
200 fragments candidates for target fragment 15-23
200 fragments candidates for target fragment 16-24
200 fragments candidates for target fragment 17-25
200 fragments candidates for target fragment 18-26
200 fragments candidates for target fragment 19-27
200 fragments candidates for target fragment 20-28
200 fragments candidates for target fragment 21-29
200 fragments candidates for target fragment 22-30
200 fragments candidates for target fragment 23-31
200 fragments candidates for target fragment 24-32
200 fragments candidates for target fragment 25-33
200 fragments candidates for target fragment 26-34
200 fragments candidates for target fragment 27-35
200 fragments candidates for target fragment 28-36
200 fragments candidates for target fragment 29-37
200 fragments candidates for target fragment 30-38
200 fragments candidates for target fragment 31-39
200 fragments candidates for target fragment 32-40
200 fragments candidates for target fragment 33-41
200 fragments candidates for target fragment 34-42
200 fragments candidates for target fragment 35-43
200 fragments candidates for target fragment 36-44
200 fragments candidates for target fragment 37-45
200 fragments candidates for target fragment 38-46
200 fragments candidates for target fragment 39-47
200 fragments candidates for target fragment 40-48
200 fragments candidates for target fragment 41-49
200 fragments candidates for target fragment 42-50
200 fragments candidates for target fragment 43-51
200 fragments candidates for target fragment 44-52
200 fragments candidates for target fragment 45-53
200 fragments candidates for target fragment 46-54
200 fragments candidates for target fragment 47-55
200 fragments candidates for target fragment 48-56
Collecting structural information … Done (2908)!
Creating Rosetta fragments … Done!
3mer fragments …
Checking MFR Fragments Candidates …
200 fragments candidates for target fragment 1-3
200 fragments candidates for target fragment 2-4
200 fragments candidates for target fragment 3-5
200 fragments candidates for target fragment 4-6
200 fragments candidates for target fragment 5-7
200 fragments candidates for target fragment 6-8
200 fragments candidates for target fragment 7-9
200 fragments candidates for target fragment 8-10
200 fragments candidates for target fragment 9-11
200 fragments candidates for target fragment 10-12
200 fragments candidates for target fragment 11-13
200 fragments candidates for target fragment 12-14
200 fragments candidates for target fragment 13-15
200 fragments candidates for target fragment 14-16
200 fragments candidates for target fragment 15-17
200 fragments candidates for target fragment 16-18
200 fragments candidates for target fragment 17-19
200 fragments candidates for target fragment 18-20
200 fragments candidates for target fragment 19-21
200 fragments candidates for target fragment 20-22
200 fragments candidates for target fragment 21-23
200 fragments candidates for target fragment 22-24
200 fragments candidates for target fragment 23-25
200 fragments candidates for target fragment 24-26
200 fragments candidates for target fragment 25-27
200 fragments candidates for target fragment 26-28
200 fragments candidates for target fragment 27-29
200 fragments candidates for target fragment 28-30
200 fragments candidates for target fragment 29-31
200 fragments candidates for target fragment 30-32
200 fragments candidates for target fragment 31-33
200 fragments candidates for target fragment 32-34
200 fragments candidates for target fragment 33-35
200 fragments candidates for target fragment 34-36
200 fragments candidates for target fragment 35-37
200 fragments candidates for target fragment 36-38
200 fragments candidates for target fragment 37-39
200 fragments candidates for target fragment 38-40
200 fragments candidates for target fragment 39-41
200 fragments candidates for target fragment 40-42
200 fragments candidates for target fragment 41-43
200 fragments candidates for target fragment 42-44
200 fragments candidates for target fragment 43-45
200 fragments candidates for target fragment 44-46
200 fragments candidates for target fragment 45-47
200 fragments candidates for target fragment 46-48
200 fragments candidates for target fragment 47-49
200 fragments candidates for target fragment 48-50
200 fragments candidates for target fragment 49-51
200 fragments candidates for target fragment 50-52
200 fragments candidates for target fragment 51-53
200 fragments candidates for target fragment 52-54
200 fragments candidates for target fragment 53-55
200 fragments candidates for target fragment 54-56
Collecting structural information … Done (4027)!
Creating Rosetta fragments … Done!
Generating ROSETTA path file …
Generating ROSETTA running script …
Fragment Candidates Ready!
Go to rosetta, and type runRosetta3.com to run ROSETTA(3.X)!
However, when I go to the just generated rosetta folder and run “runRosetta3.com”, I got errors:
usersxxx:rosetta>runRosetta3.com
ERROR: Option matching -in::file::frag3 not found in command line top-level context
—> I checked the Rosetta 3 command list and edit the “runRosetta3.com”, replace all double colons “::” by single colons “:” and save it. The edited “runRosetta3.com” is running now.
–> After testing, taking off one colon is necessary to run CS-rosetta well on my iMac.
12/23/2010
Rosetta For Mac 10.6.8 Download
update: 1/27/2011
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