- Opensim-testers - SimTK Mailing Lists

ik on mac osx
by guillaume rao 22 Apr '10

22 Apr '10

Hello all, I tried several times to run IK on mac osx 10.6.3 with ipopt and I always get a "bus" error. When I try with cfsqp, I get an error saying that the library is not found : Can't perform operation: Could not load CFSQP library 'libosimCFSQP.so': dlopen(libosimCFSQP.so, 9): image not found CFSQP optimizer algorithm unavailable. Using the jacobian option, the ik eventually ran :-) Is someone having the same bug? Thanks Guillaume

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Release Candidate 2 is up
by Ayman Habib 20 Apr '10

20 Apr '10

Hi All, Release 2.0.2 Release Candidate 2 is now on the server, (one new file OpenSim-2.0.2Rc2-win32-VC8.exe in Release Betas package) it should have fixes to all the issues reported during the testing of the previous candidate so please feel freee to do a spot check of those bug-fixes to make sure we addressed them all. Thanks for your help with the testing, you sure made a difference. Only Windows packaging is available as of now, the Mac and Linux ones will be coming up soon. We plan to make this release public shortly so please continue to test and let us know your feedback. All the best, -Ayman

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muscle analysis bug with locked coordinates
by Tim Dorn 19 Apr '10

19 Apr '10

When running a MuscleAnalysis on a model with locked joints and the locked joint is included in the <moment_arm_coordinate_list>, the program crashes (in the GUI and command prompt). TO REPRODUCE BUG (in GUI) Load ARM26 model Lock a coordinate (i.e. r_shoulder_elev) Run the attached analysis I suppose if a coordinate is locked, then it does not make sense to obtain moment arms or moments about that joint, but perhaps an error message would suffice (rather than crashing). Tim

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repeated analysis warning messages slow the execution of analyses
by Tim Dorn 19 Apr '10

19 Apr '10

When any analysis is executed on a model with locked joints, these two warnings fill up the screen multiple times and slow down the analysis execution Coordinate.setValue: WARN- coordinate xxx is locked. Unable to change its value. Muscle xxx has 0. FiberLength. Aborting... Not sure what they are trying to warn about, but they could only appear once so the analysis is not slowed down at each time frame. Tim

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Mac version of opensim
by guillaume rao 15 Apr '10

15 Apr '10

Hello all, running the scale tool on a mac seems to work (even if at the end of the script an error occurred while running the ik optimizer) and I can get a scaled Osim model at the end. however, when I tried to run the ik tool, the optimizer failed. It seems to be an issue with the ipopt routine. I tried to change the optimizer from ipopt to cfsqp, but the program couldn't find the libosimCFSQP.so library. I wonder whether the compiled tools are standalone or whether I need to install the SimTK libraries. Thanks! Guillaume %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% Guillaume Rao, PhD Institute of Movement Sciences University of the Mediterranean, Marseille, France. E-mail: guillaume.rao(a)univmed.fr Phone: +33 (0) 4 91 17 04 22 %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%

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Re: Test results for OpenSim 2.0.2 on Windows 7
by Ayman Habib 15 Apr '10

15 Apr '10

Hi Moonki, Thanks for the feedback. I made a change based on your earlier report so that (on Windows) the headers included under sdk/include/SimTK/include/Win32 in 2.0.2 Beta are now installed under sdk/include/SimTK/include instead. This was done to have a layout similar to stock simtk installs so that users can use other simtk installations if they want to, and also in order not to complicate the CMakeLists.txt files with having one more include directory (only for Windows). The reason we used *.cpp, *.h instead of specific file names is so that users can rename the files without having to change the CMakeLists.txt file but if that's problematic then please let me know and we can adjust. Thanks for the find regarding the default path, I'll revert it to be "C:/Program Files/OpenSim 2.0/" per your recommendation. Cheers, -Ayman ----- Original Message ----- From: MoonKi Jung To: Ayman Habib Sent: Wednesday, April 14, 2010 6:53 PM Subject: Re: Test results for OpenSim 2.0.2 on Windows 7 Hi, Ayman. I did some additional tests of OpenSim 2.0.2 on Windows7. 74 Install successfully on Windows7 machine -> OK 76 Build and install Plugin example with VC8 Windows7 -> OK(But some modifications needed) I attached the modified ‘CMakeList.txt’ file for plugin example. The original ‘CMakeList.txt’ file in the ‘C:/Program Files/OpenSim 2.0/sdk/examples/plugin’ should be modified in Windows 7. I wrote the changed portion here: FILE(GLOB SOURCE_FILES *.cpp) -> SET(HEADER_FILES osimPluginDLL.h AnalysisPlugin_Template.h RegisterTypes_osimPlugin.h) FILE(GLOB INCLUDE_FILES *.h) -> SET(SOURCE_FILES AnalysisPlugin_Template.cpp RegisterTypes_osimPlugin.cpp) SET(OPENSIM_INSTALL_DIR "C:/Program Files/OpenSim 2.0.2/" CACHE PATH "Top-level directory of OpenSim install") -> SET(OPENSIM_INSTALL_DIR "C:/Program Files/OpenSim 2.0/" CACHE PATH "Top-level directory of OpenSim install") SET(OPENSIM_HEADERS_DIR ${OPENSIM_INSTALL_DIR}/sdk/include) SET(XERCES_HEADER_DIR ${OPENSIM_INSTALL_DIR}/sdk/include/xercesc) SET(SIMTK_HEADERS_DIR ${OPENSIM_INSTALL_DIR}/sdk/include/SimTK/include) INCLUDE_DIRECTORIES(${OPENSIM_HEADERS_DIR} ${XERCES_HEADER_DIR} ${SIMTK_HEADERS_DIR}) -> SET(OPENSIM_HEADERS_DIR ${OPENSIM_INSTALL_DIR}/sdk/include) SET(XERCES_HEADER_DIR ${OPENSIM_INSTALL_DIR}/sdk/include/xercesc) SET(SIMTK_HEADERS_DIR ${OPENSIM_INSTALL_DIR}/sdk/include/SimTK/include) SET(SIMTK_HEADERS_DIR2 ${OPENSIM_INSTALL_DIR}/sdk/include/SimTK/include/Win32) INCLUDE_DIRECTORIES(${OPENSIM_HEADERS_DIR} ${XERCES_HEADER_DIR} ${SIMTK_HEADERS_DIR} ${SIMTK_HEADERS_DIR2}) And also AnalysisPlugin_Template::step should be modified. But this is a well-known issue. Best regards, Moonki 2010/4/11 Ayman Habib <ahabib(a)stanford.edu> Dear All, A release candidate of OpenSim 2.0.2. has been placed on the downloads page of OpenSim under the package name "OpenSim Release Betas", please give it a spin and send your findings to this list. As of now the release is only available on Windows (and built with VisualStudio 8 Professional ). Both linux and MAC builds of the OpenSim libraries will be available early next week. For specific testing activities, I created a list of tasks, available at https://simtk.org/pm/task.php?group_project_id=935&group_id=91&func=browse Feel free to pick any subset of these and let us know so that the effort is not duplicated. Just installing the application, and trying the APIExample, plugin or trying to continue your regular use of OpenSim and reporting any issues would be a great help. The release contains primarily bug fixes and a couple minor changes to the GUI. Thanks all for your time & welcome to the team. I sure look forward to your feedback. -Ayman On behalf of the OpenSim team _______________________________________________ Opensim-testers mailing list Opensim-testers(a)simtk.org https://simtk.org/mailman/listinfo/opensim-testers

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small change to example plugin (line 479) in 2.0.2 BETA
by Tim Dorn 15 Apr '10

15 Apr '10

Need to fix the step() method in the example plugin and check back into repository. (line 479): CURRENTLY if(!proceed(_model->getStep(s))) return(0); SHOULD BE if(!proceed(stepNumber)) return(0); Then the example plugin compiles and executes. Tim

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Linux Build available
by Ayman Habib 14 Apr '10

14 Apr '10

Hi All, I just uploaded a Linux version of the OpenSim 2.0.2 Release Candidate. This distribution includes only command line tools and libraries/headers for API use. If you're on Linux please give it a spin and let me know your findings. Primarily I'd like to test the building /running of of the API examples (a separate download for now) Thanks, -Ayman

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Fw: Feedback on OpenSim 2.0.2 On behalf of Tim Dorn
by Ayman Habib 14 Apr '10

14 Apr '10

.... I've done a few tests with my pipeline (SCALE-IK-RRA-SO) for my data, and results are the same as 2.0.1 (except now I get a Muscle xxx has 0. FiberLength. Aborting... error for all my muscles upon initialization of SO - Results are the same as 2.0.1 but I suppose this is doing some sort of error checking???) Installs on Windows Vista............................................. PASSED .. Compiles and detects plugins......................................... FAILED (see below: I tried to compile my exact MomArm plugin that compared different methods of calculating Moment Arms that worked with 2.0.1 and got the following error) 1>------ Build started: Project: Libraries - osimPlugin, Configuration: Release Win32 ------ 1>Compiling... 1>RegisterTypes_osimPlugin.cpp 1>c:\program files\opensim 2.0.2\sdk\include\simtk\include\SimTKcommon/internal/ThreadLocal.h(35) : fatal error C1083: Cannot open include file: 'pthread.h': No such file or directory 1>MomArm.cpp 1>c:\program files\opensim 2.0.2\sdk\include\simtk\include\SimTKcommon/internal/ThreadLocal.h(35) : fatal error C1083: Cannot open include file: 'pthread.h': No such file or directory 1>Generating Code... 1>Build log was saved at "file://c:\!PROJECT\OpenSim_Plugins\MomArmBuild202\osimPlugin.dir\Release\BuildLog.htm" 1>Libraries - osimPlugin - 2 error(s), 0 warning(s) ========== Build: 0 succeeded, 1 failed, 2 up-to-date, 0 skipped ========== So I'm not sure if I need to change anything in my cpp and h files between 2.0.1 and 2.0.2. Same thing happens when I try to compile the example plugin in the sdk\examples folder. .. Tim

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Mac OSX Build
by guillaume rao 14 Apr '10

14 Apr '10

Hello all, that's great to give a try to a mac version :-) Thanks for the work! I tried to run the examples (2354) from the command line and couldn't go farther than scaling the model. here are the end of the outputs of the terminal : Step 3: Placing markers on model Loaded marker file /Developer/OpenSim202mac/examples/Gait2354_Simbody/subject01_static.trc (49 markers, 300 frames) Averaged frames from time 1 to 2 in /Developer/OpenSim202mac/examples/Gait2354_Simbody/subject01_static.trc (frames 61 to 121) Deleted 0 unused markers from model subject01 Marker Tasks: Sternum: weight 1 from file (columns 93-95) R.Acromium: weight 1 from file (columns 96-98) L.Acromium: weight 1 from file (columns 99-101) Top.Head: weight 1 from file (columns 144-146) I removed all the markers here L.Midfoot.Lat: weight 1 from file (columns 87-89) L.Toe.Lat: weight 1 from file (columns 132-134) L.Toe.Med: weight 1 from file (columns 135-137) L.Toe.Tip: weight 1000 from file (columns 90-92) Unprescribed Coordinate Tasks (with nonzero weight): subtalar_angle_r: weight 1000 constant target value of 0 mtp_angle_r: weight 1000 constant target value of 0 subtalar_angle_l: weight 1000 constant target value of 0 mtp_angle_l: weight 1000 constant target value of 0 lumbar_extension: weight 1000 constant target value of 0 Solving IK trial: Using Ipopt optimizer algorithm. U???8?]?u??}?? U???8?]?u??}?? Bus error I don't understand why I have to run an Inverse Kinematics step during the scaling. No model is created and I can't run the IK command after that. Thanks in advance for the answers! Best regards Guillaume %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% Guillaume Rao, PhD Institute of Movement Sciences University of the Mediterranean, Marseille, France. E-mail: guillaume.rao(a)univmed.fr Phone: +33 (0) 4 91 17 04 22 %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%

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