From: Michael Hanke Date: Mon, 27 Jun 2011 22:09:30 +0000 (-0400) Subject: The survey 2011 results. X-Git-Url: https://git.donarmstrong.com/?a=commitdiff_plain;h=a17ac91bc32ddb50efc72f3a17f7ae4ab4b2c4a1;p=neurodebian.git The survey 2011 results. --- diff --git a/Makefile b/Makefile index 9488696..76ca1c2 100644 --- a/Makefile +++ b/Makefile @@ -16,6 +16,7 @@ html: pics source cd build/src && $(MAKE) html BUILDDIR=$(CURDIR)/build 2>&1 mv $(WWW_DIR)/_static/robots.txt $(WWW_DIR)/ cp -r build/src/lists $(WWW_DIR)/ + cp -r sphinx/survey/2011/figures/* $(WWW_DIR)/_images/ clean: diff --git a/sphinx/survey/2011/figures/ospref_by_env.png b/sphinx/survey/2011/figures/ospref_by_env.png new file mode 100644 index 0000000..7c1e393 Binary files /dev/null and b/sphinx/survey/2011/figures/ospref_by_env.png differ diff --git a/sphinx/survey/2011/figures/ratings_man_os_man_r1.png b/sphinx/survey/2011/figures/ratings_man_os_man_r1.png new file mode 100644 index 0000000..06cf50a Binary files /dev/null and b/sphinx/survey/2011/figures/ratings_man_os_man_r1.png differ diff --git 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differ diff --git a/sphinx/survey/2011/figures/submissions_per_virt_prod.png b/sphinx/survey/2011/figures/submissions_per_virt_prod.png new file mode 100644 index 0000000..83cfece Binary files /dev/null and b/sphinx/survey/2011/figures/submissions_per_virt_prod.png differ diff --git a/sphinx/survey/2011/figures/time_by_env.png b/sphinx/survey/2011/figures/time_by_env.png new file mode 100644 index 0000000..8437192 Binary files /dev/null and b/sphinx/survey/2011/figures/time_by_env.png differ diff --git a/sphinx/survey/2011/index.rst b/sphinx/survey/2011/index.rst new file mode 100644 index 0000000..3013138 --- /dev/null +++ b/sphinx/survey/2011/index.rst @@ -0,0 +1,29 @@ +************************************************************* + The 2011 survery of software usage in neuroscience research +************************************************************* + +In May 2011, we conducted an online survey in which we asked neuroscientists to +share some details about their computing environments. We were interested in +what operating systems they are using do conduct their research. In what +environments they are working, for what fraction of their time? How long they +need to spend on non-research maintenance activies? And we asked them about +their opinion on certain aspects of the operating systems they are using. +Finally we also wanted to know where they obtain the software they need, and +which particular applications they are using. + +Within 12 days, a total of 583 participants from 44 countries responded to the +survey. The main results of this survey have been published in the journal +`Frontiers in Neuroinformatics`: + + Hanke, M. & Halchenko, Y. O. (2011). `Neuroscience runs on GNU/Linux + <_files/HankeHalchenko_FrontiersInNeuroinformatics2011.pdf>`_. + *Frontiers in Neuroinformatics, 5:8*. + +.. toctree:: + :maxdepth: 1 + + results + questionnaire + +The survey data is available on `GitHub +`_. diff --git a/sphinx/survey/2011/questionnaire.rst b/sphinx/survey/2011/questionnaire.rst new file mode 100644 index 0000000..7c23e51 --- /dev/null +++ b/sphinx/survey/2011/questionnaire.rst @@ -0,0 +1,942 @@ + +The 2011 survey form +==================== + +.. note:: + + This was the 2011 survey form -- displayed here for the purpose of + documentation. Since the survey is already closed, it cannot be used to + submit responses anymore. + +This survey should take about five minutes. Immediately after submission you +will be presented with some statistics on previous responses. Please try to +answer as many questions as you can, but don't worry if you cannot answer all +of them. *You need to have javascript enabled in your browser for this survey.* +For feedback email team@neuro.debian.net + +.. raw:: html + +
+ + +Personal background +------------------- + +.. raw:: html + + + + + +
+ +Which country are you working in? + +.. raw:: html + + + +.. raw:: html + :file: select_country.inc + +.. raw:: html + +
+ +Where are you working? + +.. raw:: html + + + +
+ +What is your position? + +.. raw:: html + + + +
+ +What type of data are you working with? Please check all items that apply. + +.. raw:: html + + +
+ Behavioral
+ Genetic
+ MRI/fMRI/DTI
+ EEG/MEG
+ PET/SPECT
+ 		+ Electrophysiology
+ Microspectroscopy
+ Computational modeling/Simulations
+ + +
+
+ +Are you developing software that is intended to be used by other researchers? + +.. raw:: html + + + Yes + No +
+ +Personal scientific software environment +---------------------------------------- + +Here are a few questions about your personal scientific software environment +for research activities like data acquisition, computational modeling, and data +analysis. You might be running this on your laptop, desktop, personal +workstation or any other machine where **you decide** what software you are +using, and you typically also have permission to **install it yourself**. If +you are operating different environments, please describe the one that you find +most productive for your research purposes. If you don't have a machine that +you administer yourself, instead, please indicate what kind of scientific +software environment you would like to be doing your research in. + +.. raw:: html + + + + + +
+ +What fraction of your research activity time do you spend in this software +environment as opposed to any other environment that you might have access to? + +.. raw:: html + + + +
+ +What type of hardware are you using? + +.. raw:: html + + + +
+ +What operating system is this environment running on? + +.. raw:: html + + + +
+ +How much time do you spend each month on maintaining this environment? This +includes the time spent on operating system (security) upgrades, as well as +installing and updating scientific software. + +.. raw:: html + + + hours per month +
+ +--------------------------------------------------------------- + +Please indicate how much you agree to the following statements. + +.. raw:: html + + + + + +
+ +*I prefer this particular scientific software environment because ...* + +.. raw:: html + +
+ +... the developers of an important research software recommend it + +.. raw:: html + + +
Definitely agree
+
Mostly agree
+
Mostly disagree
+
Definitely disagree
+
+ + +... of the variety of available research software for this environment + +.. raw:: html + + +
Definitely agree
+
Mostly agree
+
Mostly disagree
+
Definitely disagree
+
+ + +... of the availability of commercial support + +.. raw:: html + + +
Definitely agree
+
Mostly agree
+
Mostly disagree
+
Definitely disagree
+
+ + +... many of my colleagues use something similar + +.. raw:: html + + +
Definitely agree
+
Mostly agree
+
Mostly disagree
+
Definitely disagree
+
+ + +... it is popular and I can get solutions for problems from web forums and mailing lists + +.. raw:: html + + +
Definitely agree
+
Mostly agree
+
Mostly disagree
+
Definitely disagree
+
+ + +... I rely on a particular application that runs in this environment only + +.. raw:: html + + +
Definitely agree
+
Mostly agree
+
Mostly disagree
+
Definitely disagree
+
+ + +... it has adequate support for all required hardware + +.. raw:: html + + +
Definitely agree
+
Mostly agree
+
Mostly disagree
+
Definitely disagree
+
+ + +... I have the necessary technical skills to maintain this environment myself + +.. raw:: html + + +
Definitely agree
+
Mostly agree
+
Mostly disagree
+
Definitely disagree
+
+ + +Managed scientific software environment +--------------------------------------- + +The following questions are about a managed environment of scientific software +that is provided to you to carry out computing and data analysis. Such an +environment is typically managed by **dedicated IT staff**, and **you don't +have permissions to install arbitrary software**. This environment may be +shared by many researchers in a lab, a whole research institution, or even be +publicly accessible. If you have access to multiple environments of this kind, +please describe the one that offers most support for your particular research +purposes. + + +.. raw:: html + + + + + +
+ +What fraction of time do you spend in this environment during your research +activities? + +.. raw:: html + + + +
+ +What type of hardware is this software environment running on? + +.. raw:: html + + + +
+ + +What operating system is this environment running on? + +.. raw:: html + + + +
+ +--------------------------------------------------------------- + +How much do you agree to the following statements? + +.. raw:: html + + + + + +
+ +This environment provides me with the best available tools for my research + +.. raw:: html + + +
Definitely agree
+
Mostly agree
+
Mostly disagree
+
Definitely disagree
+
+ +The support staff solves all my technical problems and addresses my demands in +a timely fashion + +.. raw:: html + + +
Definitely agree
+
Mostly agree
+
Mostly disagree
+
Definitely disagree
+
+ +There are always enough licenses for essential commercial software tools + +.. raw:: html + + +
Definitely agree
+
Mostly agree
+
Mostly disagree
+
Definitely disagree
+
+ +I need to deploy additional software to be able to perform my research in this environment + +.. raw:: html + + +
Definitely agree
+
Mostly agree
+
Mostly disagree
+
Definitely disagree
+
+ + +Using this managed environment is more cost effective than operating a suitable +environment myself + +.. raw:: html + + +
Definitely agree
+
Mostly agree
+
Mostly disagree
+
Definitely disagree
+
+ +.. raw:: html + +
+ +Virtualization +-------------- + +The following questions are about your usage of systems for hardware +virtualization in your research -- so-called **virtual machines**. +Virtualization is a technology that allows running more than one operating +systems on one machine at the same time. + +.. raw:: html + + + +
+ +What fraction of your research activity time do you spend in a virtual +environment as opposed to any other environment? + +.. raw:: html + + + +
+ +Which products for virtualization are you using? + +.. raw:: html + + +
+ VMWare
+ VirtualBox
+ Parallels
+ QEMU
+ 		+ Virtual PC
+ Xen
+ KVM
+ + +
+
+ +What **guest operating system** is running inside virtual machine? + +.. raw:: html + + + +
+ +What **host operating system** are the virtual machines running on? + +.. raw:: html + + + +
+ +--------------------------------------------------------------- + +What are your reasons for employing virtualization in you research? +Please indicate how much you agree to the following statements + +.. raw:: html + + + + +
+ +I can run software that is otherwise incompatible with my system + +.. raw:: html + + +
Definitely agree
+
Mostly agree
+
Mostly disagree
+
Definitely disagree
+
+ +I have the ability to easily create a snapshot of my whole analysis environment + +.. raw:: html + + +
Definitely agree
+
Mostly agree
+
Mostly disagree
+
Definitely disagree
+
+ + +I can take my complete analysis environment with me and run it on different +machines + +.. raw:: html + + +
Definitely agree
+
Mostly agree
+
Mostly disagree
+
Definitely disagree
+
+ +The performance of a virtual machine is sufficient for routine application in my +research + +.. raw:: html + + +
Definitely agree
+
Mostly agree
+
Mostly disagree
+
Definitely disagree
+
+ + +Resources for scientific software +--------------------------------- + +Where do you obtain scientific software that you employ in your research? Please +check all items that apply + +.. raw:: html + + + +
+ +Directly from vendor or project website + +.. raw:: html + +
+ +Retailer + +.. raw:: html + +
+ +Comes with the operating system + +.. raw:: html + +
+ +`Comprehensive Perl Archive Network (CPAN) `_ + +.. raw:: html + +
+ +`Comprehensive R Archive Network (CRAN) `_ + +.. raw:: html + +
+ +`Extra Packages for Enterprise Linux (EPEL) `_ + +.. raw:: html + +
+ +`Fink `_ + +.. raw:: html + +
+ +`FreeBSD ports `_ + +.. raw:: html + +
+ +`International neuroinformatics Coordinating Facility (INCF) Research Tools `_ + +.. raw:: html + +
+ +`Macports `_ + +.. raw:: html + +
+ +`Matlab Central `_ + +.. raw:: html + +
+ +`NeuroDebian `_ + +.. raw:: html + +
+ +`Neuroimaging Informatics Tools and Resources Clearinghouse (NITRC) `_ + +.. raw:: html + +
+ +`Python Package Index (PyPi) `_ + +.. raw:: html + +
+ +Python bundles: `Enthought Python `_, `Python(x,y) `_ + +.. raw:: html + +
+ +`Sourceforge `_ + +.. raw:: html + +
+ +
+ +Software selection +------------------ + +Please select all software that you are using in your research. + +Generic computing, scripting, programming environments +~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + +.. raw:: html + + + + + + + + + + + + + + + + + + + + + + + + +
C/C++FortranIDLJavaLabVIEWLISREL
MapleMathcadMathematicaMatlabOctavePerl
PythonRRubyScilabSPSSSCIRun
Shell scripting
+ +Distributed computing - frameworks and controllers +~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + +.. raw:: html + + + + + + + + +
SGETorque/OpenPBS/MauiCondorGlobusMPI (any)IPython
+ +Imaging +~~~~~~~ + +.. raw:: html + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
3D SlicerAFNIAeskulapAmide
BIRN ToolsBRAINS ToolsBioimage SuiteBrainMap
BrainVISA/AnatomistBrainVoyagerCMTKCamino
CaretConnectomeViewerDSI StudioDTI-TK
Diffusion Toolkit/TrackvisFSLFijiFreeSurfer
ITK-SNAPImageJInvesaliusLONI
LipsiaMangoMIPAV/JISTMNI tools
MRIcronMRtrixMatlab MVPA toolboxNiBabel/PyNIfTI
NiPy/NiTime/DiPy/NiPypePyMVPARESTSPM
V3DVoxBo
+ +Data management +~~~~~~~~~~~~~~~ + +.. raw:: html + + + + +
XNAT/PyXNAT/...Human Imaging Database (HID)
+ +Neural systems modeling +~~~~~~~~~~~~~~~~~~~~~~~ + +.. raw:: html + + + + + + + + + + + + + + + + + + + + + + + + + + +
BrianSiemens ECANSEEmergent NNSSGenesisiNVTiqr
MooseNengoNESTNeuroMLNEURONNeuroSolutions
PCSIMPeltarionPSICSPyNNSNNAPSNNS
TopographicaXNBCXPP/XPPAUT
+ +Electrophysiology, MEG/EEG +~~~~~~~~~~~~~~~~~~~~~~~~~~ + +.. raw:: html + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
ASABESABioSigBrainStormBrainSuiteBrainvision Analyzer
ChronuxEEGLABElekta NeuromagEMSEFieldtripFMAToolbox
KlustaKwikKlustersLORETA/sLORETAMClustMNE suiteNDManager
NeuroExplorerNeuroscanNeuroScopeNeuroshareOpenelectrophyOpenMEEG
PlexonRelacsRTXITrellis-neuro
+ +Brain-computer interface +~~~~~~~~~~~~~~~~~~~~~~~~ + +.. raw:: html + + + + + +
BCI2000OpenVIBEPyff
+ +Hardware interface/Data acquisition +~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + +.. raw:: html + + + + + +
ComediEPICSMX
+ +Real-time solutions +~~~~~~~~~~~~~~~~~~~ + +.. raw:: html + + + + + + +
RTAIXenomaiRTLinuxPREEMPT_RT
+ +Psychophysics, Experiment control +~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + +.. raw:: html + + + + + + + + + + + + + + + + +
CogentDMDXE-PrimeOpenSesamePresentationPsychoPyPsychtoolbox
PsyScopePsytoolkitPyEPLSuperLabTscopeVisionEgg
+ +Other +~~~~~ + +.. raw:: html + + + +
+ (comma-separated list)
+ +--------------------------------------------------------------- + +.. raw:: html + +
diff --git a/sphinx/survey/2011/results.rst b/sphinx/survey/2011/results.rst new file mode 100644 index 0000000..1557105 --- /dev/null +++ b/sphinx/survey/2011/results.rst @@ -0,0 +1,180 @@ +============================== + Supplementary survey results +============================== + +.. note:: + + The primary analyses have been published in: + + Hanke, M. & Halchenko, Y. O. (2011). `Neuroscience runs on GNU/Linux + <_files/HankeHalchenko_FrontiersInNeuroinformatics2011.pdf>`_. + *Frontiers in Neuroinformatics, 5:8*. + +.. include:: figures/stats.txt + +Submitter background +-------------------- + +The figures in this section provide some information on the background of the +participants in this survey: What data do they work with? Where are they coming +from? What is their position? Whom are they employed by? + +.. figure:: figures/submissions_per_bg_datamod.png +.. figure:: figures/submissions_per_bg_country.png +.. figure:: figures/submissions_per_bg_employer.png +.. figure:: figures/submissions_per_bg_position.png + + +Scientific computing environment preferences +-------------------------------------------- + +This figures in this section expand the analysis on operating system environment +preference, and illustrate the results of the rating analysis reported in the +paper. + +.. figure:: figures/time_by_env.png +.. figure:: figures/ospref_by_env.png + + + +Rating analyses +~~~~~~~~~~~~~~~ + +The figures in this section show rating statistics grouped by the +respective operating system and use the same system color code +as in the figure above. The segments in each bar indicate the +frequency of individual rating options (from *definitely disagree* to +*definitely agree*) in up to four levels of color saturation. + + +Personal environment +^^^^^^^^^^^^^^^^^^^^ + +I prefer this particular scientific software environment because ... + +.. raw:: html + + + + + + + + + + + + + + + + + + + + + + + + + + +
... the developers of an important research software recommend it ratings_pers_os_pers_r1.png
... of the variety of available research software for this environment ratings_pers_os_pers_r2.png
... of the availability of commercial support ratings_pers_os_pers_r3.png
... many of my colleagues use something similar ratings_pers_os_pers_r4.png
... it is popular and I can get solutions for problems from web forums and mailing lists ratings_pers_os_pers_r5.png
... I rely on a particular application that runs in this environment only ratings_pers_os_pers_r6.png
... it has adequate support for all required hardware ratings_pers_os_pers_r7.png
... I have the necessary technical skills to maintain this environment myself ratings_pers_os_pers_r8.png
+ + +Managed environment +^^^^^^^^^^^^^^^^^^^ + +I agree with the statements + +.. raw:: html + + + + + + + + + + + + + + +
This environment provides me with the best available tools for my research ratings_man_os_man_r1.png
The support staff solves all my technical problems and addresses my demands in a timely fashion ratings_man_os_man_r2.png
There are always enough licenses for essential commercial software tools ratings_man_os_man_r3.png
I need to deploy additional software to be able to perform my research in this environment ratings_man_os_man_r4.png
+ + +Virtual environment (by host OS) +^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ + +I agree with the statements + +.. raw:: html + + + + + + + + + + + +
I can run software that is otherwise incompatible with my system ratings_virt_host_os_virt_r1.png
I have the ability to easily create a snapshot of my whole analysis environment ratings_virt_host_os_virt_r2.png
I can take my complete analysis environment with me and run it on different machines ratings_virt_host_os_virt_r3.png
+ + +Virtual environment (by guest OS) +^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ + +I agree with the statements + +.. raw:: html + + + + + + + + + + + +
I can run software that is otherwise incompatible with my system ratings_virt_guest_os_virt_r1.png
I have the ability to easily create a snapshot of my whole analysis environment ratings_virt_guest_os_virt_r2.png
I can take my complete analysis environment with me and run it on different machines ratings_virt_guest_os_virt_r3.png
+ + +Software resources +------------------ + +This section reports the results on where the survey participants obtain their +research software from/ + +.. figure:: figures/submissions_per_software_resource.png + +Software popularity +------------------- + +The section on software popularity shows what software participants indicated to +be using in their research activities -- group by field of application. + +.. note:: :sup:`†` Entries which were either entered in "Other" + field or were added to the survey form while survey was already running. + +.. figure:: figures/submissions_per_sw_general.png +.. figure:: figures/submissions_per_virt_prod.png +.. figure:: figures/submissions_per_sw_dc.png +.. figure:: figures/submissions_per_sw_img.png +.. figure:: figures/submissions_per_sw_datamanage.png +.. figure:: figures/submissions_per_sw_neusys.png +.. figure:: figures/submissions_per_sw_electro.png +.. figure:: figures/submissions_per_sw_bci.png +.. figure:: figures/submissions_per_sw_acq.png +.. figure:: figures/submissions_per_sw_rt.png +.. figure:: figures/submissions_per_sw_psychphys.png + + +.. note:: :sup:`†` Entries which were either entered in "Other" + field or were added to the survey form while survey was already running. + diff --git a/sphinx/survey/2011/select_country.inc b/sphinx/survey/2011/select_country.inc new file mode 100644 index 0000000..63c4dc7 --- /dev/null +++ b/sphinx/survey/2011/select_country.inc @@ -0,0 +1,255 @@ + diff --git a/sphinx/survey/2011/select_os_options.inc b/sphinx/survey/2011/select_os_options.inc new file mode 100644 index 0000000..18693d0 --- /dev/null +++ b/sphinx/survey/2011/select_os_options.inc @@ -0,0 +1,24 @@ + + + + + + + + + + + + + + + + + + + + + + + +