VrlWiki - User contributions [en]

Yurt demos

2019-10-22T23:15:33Z

Johannes Novotny: Created page with " == YURT Demos =="

== YURT Demos ==

Plans and Goals

2019-05-14T19:53:20Z

Johannes Novotny: /* Johannes */

Plans and Goals

2019-05-14T18:27:17Z

Johannes Novotny:

Plans and Goals

2019-01-23T06:57:48Z

Johannes Novotny: /* Johannes */

Plans and Goals

2019-01-23T00:49:10Z

Johannes Novotny:

Plans and Goals

2019-01-23T00:47:00Z

Johannes Novotny:

Plans and Goals/Spring 2018

2019-01-23T00:46:00Z

Johannes Novotny: Created page with "=== Daniel === * QIT ** work through Ryan's tutorial series and learn how to add modules ** ideally would like to be able to figure out how to write cod..."

=== [[User:Daniel Engel|Daniel]] ===

* QIT
** work through Ryan's tutorial series and learn how to add modules
** ideally would like to be able to figure out how to write code in C++ that works with QIT

*DMRI ideas
** generally, want to see how ideas from topology can help us understand DMRI data
** identify singularities of voxel-space (where diffusion is roughly isotropic) and non-singularities (more anisotropic diffusion), build a morse-smale complex, see what this can tell us
** understand the space of curves extracted via tractography:
*** once we specify a curve metric this yields a distance matrix between curves
*** to visualize this curve space I plan to use some type of spring-mass relaxation method in order to find a suitable embedding of points in a low-dim space that reflects these distances
*** persistent homology could inform the construction of a new algorithm for clustering tracts
*** explore local curve space by perturbing seed points then looking at relative change in curve space

* GBM application with Gilbert
** see how top tools can be used to measure inter-voxel coh from GBM scans
** hopefully there is some relationship between "topolgical breaks" and tumor infiltration boundary
** look at brain oxygenation levels in relation to top structures
** write semester project proposal

* people in applied topology
** attend the applied top seminars
** interact more with Isaac and Melissa
** get a sense of theoretical problems that are "hard"/(not well understood) in applying persistent hom
** figure out the details of math dept program with Jeff

* Classes
** TBD

=== [[User:David Laidlaw|David]] ===

* yurt
** seams calibrated within a few mm's by 2/15
** maybe include Simon Su, Kreylos, others; EnSight, Paravision
** paper submitted about R&D, model on Cruz, by ???
** reresubmit TTTS manuscript (Johannes) by 3/31
** new exp results paper (Johannes) by 3/31
** hmd+yurt paper resubmitted (Johannes)
* Dino major revision, maybe post vis (Johannes)
** dinoyurt progress w/steve/morgan
* Gilbert progress (w Daniel?)
** homology, tumor, maybe heart
* method of loci, mem castle (Fumeng) by 3/31
* good new course
** good resulting wiki/doc
** students engaged and satisfied
* bring in more ugrad researchers
** training, categories, job jar(s), link to Tom, advertise, web site
* orthopedics
** ~ tools continuing to run well (despite upgrade)
*** - get registration pipeline to pass regression tests
** ~ maybe pursue diffusion imaging in joints
* keep all advisees moving along appropriately
* DGS
* CCMB search

=== [[User:Johannes Novotny|Johannes]] ===

* Cave/Yurt
** Complete user study with Wesley
** Design next experiment for VT project
** Work on VR volume visualization (3D Visualizer/CaveVOX/...)
** Get more concrete collaboration with students of Robbert Creton or Kristi Wharton
** Help out with Demos when needed
** Explore use of VTK in VRG3D

* CS137
** Set up clean development branch for CavePainting
** Get acquainted with the sourcecode
** Fix some bugs if possible

* Fitts' Law
** Work on paper with HCI seminar group

* Thesis Project
** Restart discussions with Derek and Kristi
** Explore collaborations for genome folding visualizations
** by December: Create Thesis proposal draft

=== [[User:Bruce Campbell|Bruce]] ===

* Funding
** Raise funding to support Visiting Scientist position for 2016
** Submit proposals to STAC, NSF ITEST, and ONR by end of 2015
** Create ten-page white paper for Jan 31, 2016 to send to other funding organizations

* Cave/Yurt
** Axial Seamount application:
*** Implement Animation controls by Dec 31, 2015
*** Implement Grab and Manipulate interaction by Jan 30, 2016
** Create Plan for 2016 work by Jan 30, 2016 (promote here):
*** Continuous overall contribution: Useful Temporal Interaction GUIs
*** Prioritize other COVE (http://cove.ocean.washington.edu) features integration
*** Pursue Python interpreter integration unless other Yurt methods pan out
*** Anticipate STAC/ITEST programming needs for Yurt
*** Continue to pursue possible student participation

* CS 137
** Continue to attend and revisit notes from UW INDE 543
** CG&A ''Art on Graphics'' column to layout by February 15, 2016

* Distributed Cognition
** Create updated mind map (with bibliography) by Dec 31, 2015
** Create d-cog metric and test plan to support VIS/VAST paper by Jan 15, 2015
** VIS/VAST paper abstract ready by March deadline

* Personal Development
** Continuous: Improve research process effectiveness including a better parallel writing process
** Continuous: Improve conciseness in e-mail and research-related writing
** Continuous: Improve at sketching ideas

=== [[User: Fumeng Yang|Fumeng]] ===
*Research Comp (Memory Palace paper)
** Experimental system (web and VR) by the end of Jan
** Pilot study (~3 people) by the first week of Feb
** Full study (~10-15 participants) by the end of Feb (or the first week of Mar)
** Paper drafting since Feb
** Full draft by Mar 15
** Paper abstract, Mar 21
** Full paper, Mar 30/31, 2018
** Presentation, the 1st/2nd week of Apr

*Classes
** HCI seminar
** CS137?
** English evaluation

*Spatialization in VR
** Start after Mar 31
** Get datasets and make a decision about the experiments by the end of May
** Remember to ping WPI and ASU after the decision

*Internship/Summer position

*Other academic-and-professional-related things
** SV co-chair: ping after Mar 31
** Remotion (HCI group)
** VF // VF2 // MemeVis (Poster, after visddl) // PhysicalVis (?, after visddl) // PhobiaVis (Workshop paper, after visddl) // VRGym (Jing's stuff) // ?

CavePainting/user documentation

2017-09-12T15:49:16Z

Johannes Novotny: /* Keyboard Shortcuts */

Using [[Cavepainting]], like all computer programs, is mostly a matter of getting familiar with it. This HOWTO is a reference for the tools available within the program. If you'd like to learn more about command-line options and config file variables, see the [[CavePainting/technical user documentation|technical user documentation]].

= Using the Controllers =
In CavePainting, you hold a 3D tracked input device in each hand as you work. Each of these devices has a button on it. The one you hold in your drawing hand is referred to as the brush in this manual. The other device is referred to as the non-brush hand, or just the hand in this manual.

== How to draw ==
When you push down on the button on the brush and move you hand in the air you start drawing a line through the air. In fact, to be more specific the brush can do other things too if you change its mode using the Brush Mode Menu, but the typical use is drawing.

== How to move the drawing ==
The most frequent use of the non-brush hand is to grab and move the virtual drawing around. You do this by pressing and holding the button in your non-brush hand and then moving your hand around. The drawing is rotated along with your hand, so you can spin it around and turn it upside down just by twisting your hand.

== How to zoom in and out ==
You can also scale the drawing up and down. To do this, first press and hold the button in your non-brush hand just as you do to grab and move the world, but then while you are holding that button down, also press and hold down the button on your brush. Now, move your hands closer together – as you do the world will shrink. Now, move your hands farther apart, as you do the world grows. This allows you to zoom in and paint detail, or zoom out and paint lines that look huge when you zoom back in.

= The Menus =
The menus are lined up in a jittered column in the front left portion of the Cave. They stay fixed in place relative to the physical space of the Cave regardless of how you move around or how you move the virtual world. Be careful if you walk past the menus; this means you're getting close to bumping your nose against the front wall!

== Brush Mode Menu ==
[[Image:CavePainting-menu-hci.jpg|border|128px|center]]

Your brush always performs an action when you press down on its button. The brush mode that you select from this menu determines what that action is. Once you select a mode, the brush will stay in that mode until you go back to the menu and select a different one. This is like in Photoshop where you can select the paint bucket, the pencil, the eraser, etc.. When you want to change from the pencil to the eraser, you have to go back the menu and click on it. This is the same idea.

[[Image:CavePainting-menu-dragdraw.jpg|frameless|75px|left]] <div style="font-size:116%; font-weight:bold; padding-top: .5em; padding-bottom: .17em; margin-bottom: 1ex;">Default (Drag/Two-Handed) Drawing Mode</div>
This is the default drawing mode. When you press and hold the brush button paint starts coming out, but in a special way. As you move around you actually drag the brush along behind you, like a water skier. This makes it easy to draw nice smooth curves and avoid picking up jitter in the line from muscular and/or 3D tracker noise. In this mode you can also transition smoothly while you are drawing from the drag drawing style to a two-handed drawing style by pressing and holding the button in your other hand. In the two-handed mode, as described below, your line is constrained to move directly toward your other hand.

{{Infobox|content='''Tip:''' In this mode, use the guideline. Unlike the freehand mode, you can draw very slowly without ending up with a jittery line. If you want to make a very precise line, watch that guideline and don’t move your brush forward until it points in exactly the direction you want to go.}}

{{Infobox|content='''Another tip:''' If you are drawing a line that has some straight sections and some very curvy ones, try engaging the two-handed drawing feature by pressing and holding the button in your non-brush hand when you get to the straight sections.}}

[[Image:CavePainting-menu-tapedraw.jpg|frameless|75px|left]] <div style="font-size:116%; font-weight:bold; padding-top: .5em; padding-bottom: .17em; margin-bottom: 1ex;">Two-Handed Drawing Mode</div>
This is a drawing mode to use when you really want precision or when you want a straight line. When you draw, your brush is constrained to move only in the direction toward your other hand. So, if you hold your other hand still, you’ll get a totally straight line. If you move your hands together you can draw very precise and smooth curves with this mode.

{{Infobox|content='''Tip:''' In this mode, use the guideline. Line it up carefully and don’t advance the line forward until you see it is in the right place.}}

[[Image:CavePainting-menu-paintmode.jpg|frameless|75px|left]] <div style="font-size:116%; font-weight:bold; padding-top: .5em; padding-bottom: .17em; margin-bottom: 1ex;">Freehand Drawing Mode</div>
It’s really easy to use this mode, paint comes right out of your brush, no dragging like the other modes. This is good for scribbling and quick gestures, but you may find it hard to control for more precise lines.

[[Image:CavePainting-menu-placeslide.jpg|frameless|75px|left]] <div style="font-size:116%; font-weight:bold; padding-top: .5em; padding-bottom: .17em; margin-bottom: 1ex;">Place Slide</div>
When you select this mode, a palette of slides that you imported into the program shows up. First put the brush on the slide you want to use and click and release the button. Then, move both your hands together to reposition the slide in space and when you have it where you want it, press the brush button to place it there.

[[Image:CavePainting-menu-selectmode.jpg|frameless|75px|left]] <div style="font-size:116%; font-weight:bold; padding-top: .5em; padding-bottom: .17em; margin-bottom: 1ex;">Move Stuff</div>
In this mode, you can select marks, images, and annotations in your drawing to move around. In this mode and in the delete mode, you will see little spheres show up near the marks when you move your brush near them. These are handles. The closest handle to your brush will be red and all the others will be orange. The mark or image belonging to the closest handle will also highlight by turning red so you can see when it is selected. Once you have it selected, press and hold the brush button to grab it and move it around. Release it when you get it where you want.

{{Infobox|content='''Tip:''' The handles that you grab onto show up at the end points of lines that you draw. Put your brush near the end of the line to select it.}}

[[Image:CavePainting-menu-copytonextframe.jpg|frameless|75px|left]] <div style="font-size:116%; font-weight:bold; padding-top: .5em; padding-bottom: .17em; margin-bottom: 1ex;">Copy Mark to Next Frame</div>
In this mode, your brush turns to a yellow arrow like in the move mode, but now when you select a mark (remember to grab it by the handles either end, not the middle) it gets copied to the next movie frame. This only works if you have already added one or more frames to the drawing. (Drawings have just one frame by default.) Let’s say you have 3 frames in your animated drawing and you are currently looking at frame 1, if you select a mark and click the brush button, you’ll copy that mark to frame 2. Then, when you advance to frame 2, you’ll see it in the exact same place as it was in frame 1.

[[Image:CavePainting-menu-delete.jpg|frameless|75px|left]] <div style="font-size:116%; font-weight:bold; padding-top: .5em; padding-bottom: .17em; margin-bottom: 1ex;">Delete Mode</div>
In this mode, you point at objects in the scene the same way as described in the Move Stuff mode above. But, when you click your brush when something is selected, it gets deleted. You can undo a delete by choosing undo in the Oops menu.

== Brush Properties Menu ==
[[Image:CavePainting-menu-brush.jpg|border|128px|center]]

All the options in this menu select properties of the brush, this is how you tweak the appearance of the geometry that gets drawn when you paint with the brush.

[[Image:CavePainting-menu-brushsize.jpg|frameless|75px|left]] <div style="font-size:116%; font-weight:bold; padding-top: .5em; padding-bottom: .17em; margin-bottom: 1ex;">Size</div>
Use this to select the maximum size (width) for the brush. The size is always adjusted based on how hard you push on the pressure sensitive button on the brush. This controls how big the line is when you press as hard as you can.

[[Image:CavePainting-menu-colorpicker.jpg|frameless|75px|left]] <div style="font-size:116%; font-weight:bold; padding-top: .5em; padding-bottom: .17em; margin-bottom: 1ex;">Color</div>
Use this to select the color swatch for the brush. In some modes, the color is interpolated down the column that you select based on how hard you push on the brush button when you draw. Otherwise, the color at the very top of the column is always used.

{{Infobox|content='''Tip:''' If you have multiple color palettes loaded, you can switch between them by pressing the button on your non-brush hand or the space bar when this widget is active. Remember, you have to pick one color palette and stick with it for your whole drawing.}}

[[Image:CavePainting-menu-texpicker.jpg|frameless|75px|left]] <div style="font-size:116%; font-weight:bold; padding-top: .5em; padding-bottom: .17em; margin-bottom: 1ex;">Pattern</div>
Use this to select the pattern to map onto the form of the brush. Depending on the mark type you have selected, this pattern will either repeat along the form, or get stretched out along the length of it.

{{Infobox|content='''Tip''' This pattern gets combined with the current brush color. If it looks really dark, it's probably because you have a dark color selected and the pattern is making it look even darker. To just see the true color of the pattern, go to the color picker and select white.}}

You can also switch through other pattern palettes by pressing the button on your non-brush hand or the space bar when this widget is active.

[[Image:CavePainting-menu-brushtip.jpg|frameless|75px|left]] <div style="font-size:116%; font-weight:bold; padding-top: .5em; padding-bottom: .17em; margin-bottom: 1ex;">Brush Tip Mask</div>
Use this to select a black and white pattern to map onto the form of the brush. This works the same was as the patterns described above, except that it controls transparency, not color. Where the pattern is black, the form will come out completely transparent, and where it is white it will be opaque.

{{Infobox|content='''Tip:''' Try using this to draw a line with a stippled look to it. You can also switch through other brush tip palettes by pressing the button on your non-brush hand or the space bar when this widget is active.}}

[[Image:CavePainting-menu-material.jpg|frameless|75px|left]] <div style="font-size:116%; font-weight:bold; padding-top: .5em; padding-bottom: .17em; margin-bottom: 1ex;">Mark Type</div>
Use this to select the type of 3D geometry that comes out of the brush. You can create tubes, ribbons, flattened tubes, or annotations (arrows with text labels).

{{Infobox|content='''Tip:''' You can also control how patterns are applied to the forms here. Use a stamped (repeating) pattern, or a stretched pattern. Try drawing a muscle with a stretched out texture that looks like muscle fibers.}}

== Artwork Menu ==
[[Image:CavePainting-menu-artwork.jpg|border|128px|center]]

This menu controls properties of the whole scene (artwork).

[[Image:CavePainting-menu-lighting-top.jpg|frameless|75px|left]] <div style="font-size:116%; font-weight:bold; padding-top: .5em; padding-bottom: .17em; margin-bottom: 1ex;">Top Light Color</div>
Use this to select the color of an ambient ceiling light. This will start up a 3D color picker, move your brush directly within the color space to adjust the color. All the way at the top is pure white. As you move around the sides of the cone you get different hues. At the center of the space the colors are not very saturated. As you move outward, they are much more saturated. The ambient ceiling light will shine on the top surfaces of your forms.

[[Image:CavePainting-menu-lighting-bottom.jpg|frameless|75px|left]] <div style="font-size:116%; font-weight:bold; padding-top: .5em; padding-bottom: .17em; margin-bottom: 1ex;">Bottom Light Color</div>
Set the color of an ambient floor light. This will shine on the bottom facing surfaces of your forms.

[[Image:CavePainting-menu-background.jpg|frameless|75px|left]] <div style="font-size:116%; font-weight:bold; padding-top: .5em; padding-bottom: .17em; margin-bottom: 1ex;">Background Color</div>
Use this to set the background screen color.

[[Image:CavePainting-menu-layers.jpg|frameless|75px|left]] <div style="font-size:116%; font-weight:bold; padding-top: .5em; padding-bottom: .17em; margin-bottom: 1ex;">Layers</div>
This pops up a layer window that is very similar to Photoshop layers. To the left of each layer that is listed, you'll see a button to show or hide the layer. There is also a button to create a new layer. Click on the name of the layer itself to set it as the active drawing layer. You can only draw on one layer at a time --- the same as in Photoshop.

{{Infobox|content='''Tip:''' The number of the current drawing layer is always displayed in the top left corner of the screen.}}

Try drawing a figure with the bones on one layer and the muscles on another, then you can turn one or the other off easily at any time.

[[Image:CavePainting-menu-movieframe.jpg|frameless|75px|left]] <div style="font-size:116%; font-weight:bold; padding-top: .5em; padding-bottom: .17em; margin-bottom: 1ex;">Movie Frames</div>
This pops up a movie frame window that looks very similar to the layer window. Unlike layers, only one frame can be seen at a time. In fact, many drawings will only have one frame. Thus, they are like a sculpture. You can animate your sculpture by drawing in multiple frames and then cycling quickly through the frames by pressing the arrow keys on the keyboard.

{{Infobox|content='''Tip:''' You can copy an entire frame to another frame. Use this carefully because it really copies the entire contents of the frame, so you really only want to do it once. But, it could be helpful if you want to draw all the bones for a skeleton in frame 1 and then copy them all to frame 2, 3, and 4. Then, you don't need to redraw them all in the other frames, you can simply move them around until you get them in the right position.}}

== Undo/Redo (Oops) Menu ==
[[Image:CavePainting-menu-oops.jpg|border|128px|center]]

[[Image:CavePainting-menu-undo.jpg|frameless|75px|left]] <div style="font-size:116%; font-weight:bold; padding-top: .5em; padding-bottom: .17em; margin-bottom: 1ex;">Undo</div>
Not all operations can be undone, but you can use this to quickly undo the last line that you drew. Some other things, like deleting lines can also be undone.

[[Image:CavePainting-menu-redo.jpg|frameless|75px|left]] <div style="font-size:116%; font-weight:bold; padding-top: .5em; padding-bottom: .17em; margin-bottom: 1ex;">Redo</div>
This reverts back to the way things were before your last undo.

== Save/Load Menu ==
[[Image:CavePainting-menu-save.jpg|border|128px|center]]

[[Image:CavePainting-menu-savepainting.jpg|frameless|75px|left]] <div style="font-size:116%; font-weight:bold; padding-top: .5em; padding-bottom: .17em; margin-bottom: 1ex;">Save Artwork</div>
This saves a .3DArt file of your work to disk. When you select this, the program suggests a name for the file. You can change it using the keyboard, or you can just press enter on the keyboard OR press the brush button (if you don't have the keyboard next to you) to keep it. It will always avoid overwriting any of your existing files by adding a number to the end of the filename. For example, if the first time you save your drawing as "myDrawing" the second time you save, the program will suggest "myDrawing2" as the name.

{{Infobox|content='''Tip:''' Keep in mind that you are using research, not production, software here. This means you get some unique, cutting edge features, but you might uncover a few bugs. In other words, it's always possible that the program could crash. Your best defense against losing your work is to save it often!}}

[[Image:CavePainting-menu-loadartwork.jpg|frameless|75px|left]] <div style="font-size:116%; font-weight:bold; padding-top: .5em; padding-bottom: .17em; margin-bottom: 1ex;">Load Artwork</div>
This pops up a list of files in the directory set up for your account. You can select one to load and then just look at it, or keep working on it and save it again.

[[Image:CavePainting-menu-snapshot.jpg|frameless|75px|left]] <div style="font-size:116%; font-weight:bold; padding-top: .5em; padding-bottom: .17em; margin-bottom: 1ex;">Save Snapshot</div>
This will save a snapshot to a <tt>.jpg</tt> file of whatever is on your screen (or the front wall if you are running in the cave) to a file marked with the date in the directory setup for your account. In the Cave, the image will look like what you see out of your left eye when looking at the front screen. So before you press save, close your right eye and look at the front wall to frame up a good picture.

= Keyboard Shortcuts =
{| {{Prettytable|width=50%}}
|-
! {{Hl2}} | Function
! {{Hl2}} | Key
|-
| Quit || Esc
|-
| Toggle layers 0--9 || 0--9
|-
| Toggle the menu and info displays || M
|-
| Toggle the floor and shadows || A
|-
| Move to the previous/next animation frame || Left/right arrow
|}

Note that Cavepainting can process two simultaneous keypresses. This means that you can toggle the display of layers 2 and 3 simultaneously by hitting both keys at once.

[[Category:CavePainting]][[Category:CavePainting HOWTO]][[Category:User Documentation]]

Import images into CavePainting

2017-09-12T15:47:47Z

Johannes Novotny:

You can add custom color palettes, slides, paint stroke patterns, or paint stroke masks to [[CavePainting]] simply by loading image files into the program. In order to work, though, they need to be in a particular size and format, and have a particular sort of name. Loading them into the program is pretty easy, but the first time you do it you need to perform an extra setup step.

= Image Format =
All images used in CavePainting must be JPEGs (extension .jpg) in RGB color mode (not grayscale, etc.). The mode of an image can be set in the menu item Image>Mode. In the filename patterns described below, an asterisk (<tt>*</tt>) indicates any text you want. The program loads all your images on startup, so if CavePainting fails to start properly, new images that you're loading for the first time may be to blame. Check the [[Troubleshoot CavePainting startup crashes]] HOWTO for instructions on fixing your images.

== Common Problems ==
* Sometimes having spaces in the names of images can cause problems. To avoid this use snake_case or cameCase for your file names.
* When creating an alpha mask make sure that the alpha mask is ''only'' black and white. Some applications like photoshop use antialiasing when you delete a section which uses the entire gray scale.
** This usually manifests as the cave screen going blank when you launch your account, but other accounts booting up just fine.
* Make sure that your image is in RGB, not CYMK or some other format.

== Color Palettes ==
Custom color palettes must be 512x512 JPEGs with a filename of the form <tt>color-swatch-table*.jpg</tt>.

{| align="center"
|-
| valign="top" | [[Image:color-swatch-table_example.jpg|none|thumb|256px|<tt>[[:Image:color-swatch-table_example.jpg|color-swatch-table_example.jpg]]</tt> --- one of the default CavePainting color palettes.]]
| valign="top" | [[Image:color-swatch-table_sam-ballardini.jpg|none|thumb|256px|<tt>[[:Image:color-swatch-table_sam-ballardini.jpg|color-swatch-table_sam-ballardini.jpg]]</tt> --- an example pallette created by a [[CS137]] student.]]
|}

== Slides ==
Slides, also known as "billboards", are flat images that you can place in virtual space like floating pieces of paper. Each slide depends on two files, a picture and a mask, which must be the same size and have matching filename patterns. Also, the slides must be square (equal width and height) and have dimensions that are powers of 2 (64, 128, 256, 512, 1024, 2048, or 4096).

{| {{Prettytable}}
|-
! {{Hl2}} | File
! {{Hl2}} | Name Pattern
! {{Hl2}} | Size
! {{Hl2}} | Function
|-
| Picture
| <tt>slide*.jpg</tt>
| rowspan=2 | 64x64, 128x128, 256x256, 512x512, 1024x1024, 2048x2048, 4096x4096
| The picture on the slide.
|-
| Mask
| <tt>alphamask*.jpg</tt>
| A black-and-white image matching the picture. The picture is visible where the mask is white, and it's transparent where the mask is black. Make sure the color mode is not grayscale.
|}

{| align="center"
|-
| [[Image:slide_example.jpg|thumb|256px|<tt>[[:Image:slide_example.jpg|slide_example.jpg]]</tt>]]
| [[Image:alphamask_example.jpg|thumb|256px|<tt>[[:Image:alphamask_example.jpg|alphamask_example.jpg]]</tt>]]
|}

== Strokes ==
You can customize the appearance of paint strokes in two different ways. You can put a particular picture, or ''pattern'', on the stroke, or you can make it transparent in a particular shape with a ''mask''.

Palettes of patterns or masks each have 16 entries in them, each of which is a 64x64 image. In order to tell CavePainting what all 16 images are, you import them all in one file, with the square images concatenated together in a row. This gives you 16 64x64 squares lined up in a row, resulting in a 1024x64 JPEG file that you import into the program. See the examples below to get a better idea of what this means.

The vertical direction in the pattern or mask image is aligned with the direction of the stroke --- that is, a pattern that looks like horizontal stripes will result in a brush stroke with stripes across it, whereas a pattern of vertical stripes will result in a brush stroke with stripes along its length.

=== Stroke Patterns ===
A stroke pattern applies a pattern of color to a brush stroke. You should make sure that each element of any custom stroke pattern palette that you create has a little bit of visual texture to it, rather than having any large, flat areas of color. Depth perception of virtual objects in the [[Cave]] requires that your eyes can match up their two views of every object. If an object has no surface texture, it is much harder to match up than one with a little bit of texture to it.

The filename format for stroke pattern palettes is <tt>pattern*.jpg</tt>.

[[Image:Patterns_example.jpg|center|thumb|512px|<tt>[[:Image:Patterns_example.jpg|patterns_example.jpg]]</tt> --- the default CavePainting stroke pattern palette.]]

=== Stroke Masks ===
A stroke mask applies a pattern of transparency to a brush stroke. Stroke masks are black-and-white images; where the mask is white, the stroke is visible, and where it is black, the stroke is transparent. You probably want any custom stroke mask palette that you create to have one all-white 64x64 block in it, so that you always have the option of drawing an entirely solid stroke.

The filename format for stroke mask palettes is <tt>brushtips*.jpg</tt>.

[[Image:brushtips_example.jpg|center|thumb|512px|<tt>[[:Image:brushtips_example.jpg|brushtips_example.jpg]]</tt> --- the default CavePainting stroke mask palette.]]
[[Image:brushtips_dithered.jpg|center|thumb|512px|<tt>[[:Image:brushtips_dithered.jpg|brushtips_dithered.jpg]]</tt> --- a stroke mask palette for dithered translucency.]]

= Loading Images =
To import images into [[CavePainting]], follow these steps:

* Prepare the slides (and optional masks) in your program of choice
* Rename the files as described above
* Copy the images to a USB flash drive
* Insert the USB flash drive into the Windows machine
* Open the Windows File Browser from the taskbar
* Navigate to your USB flash drive on the left panel of the File Browser
* Copy the image data you wish to transfer
* Open the "CS137 - Student Directories" link on the desktop and navigate to your user directory
* Paste your image files to your user directory
* Eject your USB key
* Start or restart Cavepainting
* Enjoy your data!

= Using Images =
For instructions on how to use slides, stroke patterns, or stroke masks, see the [[Use Cavepainting]] HOWTO.

[[Category:CavePainting HOWTO]]

CS137

2017-09-12T14:47:59Z

Johannes Novotny:

'''Virtual Reality Design for Science''' is a course taught by [[User:David Laidlaw|David Laidlaw]] (from Brown CS) and [[User:Fritz Drury|Fritz Drury]] (from RISD Illustration), with course number CS137, CSCI1370, or ILLUS5303, depending on who you ask. This course explores the visual and human-computer interaction design process for scientific applications in immersive virtual reality.

This wiki page is a portal for CS137 students to access documents that help them work better in the class, including [[:Category:HOWTO|HOWTOs]] and documentation about [[CavePainting]]. All registered users can edit pages on a wiki like ours, so please [http://vrl.cs.brown.edu/wiki/index.php?title=Special:Userlogin&type=signup&returnto=CS137 sign up] or [http://vrl.cs.brown.edu/wiki/index.php?title=Special:Userlogin&returnto=CS137 log in] so that you can share information with your fellow classmates.

The [http://cs.brown.edu/courses/cs137/calendar.shtml course webpage] contains all official due dates and course information; the content of the wiki is supplementary and is mostly just documentation for the software we use.

To email your classmates, use [mailto:course.csci.1370.2017-fall.s01@lists.brown.edu the cs137 class mailing list].

== HOWTOs ==
For a list of all HOWTOs, see the [[:Category:CavePainting HOWTO|CavePainting HOWTO category page]].
* [[Run CavePainting from the kiosk]] under normal conditions.
* [[Use CavePainting]] once you've got it started.
* [[Import images into CavePainting]] to add custom content that you've made out in The Real World.
* [[Troubleshoot CavePainting]] when stuff goes wrong.

[[Category:Courses]]

Plans and Goals

2015-09-28T17:38:50Z

Johannes Novotny:

On this page the members of the [[VRL]] record and refine their goals for the current semester. This is a living document in which [[dhl]] will provide feedback. See the bottom of the page for links to past plans & goals documents.

== Current Schedule ==
Meetings are on Mondays. The authoritative list is in dhl's calendar.

== Current Plans and Goals (Fall '15) ==

=== [[User:Connor Gramazio|Connor]] ===
'''<span style="color:steelblue">Boldfaced</span>''' goals are those that mark the high-level success of each project.

===== '''Dissertation''' =====
* By 2 October: '''<span style="color:steelblue">send dhl updated proposal draft</span>'''
* By 1 November: '''<span style="color:steelblue">schedule proposal date</span>'''

====='''Fellowships'''=====
* Submit applications for Adobe, Facebook, and any other eligible fellowships
* By 2 October: get c.v. and resumé critiqued by career services
* <s>update website</s>
* <s>convert c.v. to XeTeX</s>

===== '''Genomics''' =====
* Weekly: check up on MAGI interaction log scraping
* By 10 October: complete last additions
* By 23 October: '''<span style="color:steelblue">(re)submit latest draft to TVCG</span>'''
* By 31 October: meet with Ben to scope annotation-network traversal project
* By 13 November: build rapid prototype annotation-network traversal visualization
* By 27 November: complete one new BLADE analysis feature
* By 17 December: '''<span style="color:steelblue">complete stable annotation-network traversal visualization prototype</span>'''

===== '''Color''' =====
* By 1 November: '''<span style="color:steelblue">(re)submit paper to TOG</span>''' (or delay to SIGGRAPH?)
* By 31 November: complete prototype of D3 decomposition-by-category Colorgorical feature
* By 17 December: use JND measure dependent on mark size in Colorgorical
* Help Karen prep heatmap color paper for submission

===== '''Other''' =====
* Complete Sheridan Certificate I program
* Give a great color lecture for Remco's infovis class

=== [[User:Hua Guo|Hua]] ===
*<s>Cog grant proposal</s>
** <s>By Sep. 11: take one pass through the proposal to resolve any inconsistency in contents</s>
* '''BraiNet implementation'''
** By Oct. 30: implement basic corpus analysis functionalities
*** (By Sep. 18) Context-based retrieval: given a block of texts, use techniques such as latent semantic analysis or topic modeling to extract relevant key terms
*** <s>(By Sep. 25) Three way linking between primary texts (e.g. a word document, a piece of plain text, a bibtex file), concepts and evidence</s>
*** (By Oct. 9) Support search within a small set of publications provided by the user (e.g. a bibtex file)
*** (By Oct. 23) Meet with Badre for feedback
*** (By Oct. 30) Case papers: lets the user specify case papers in addition to supplying texts or terms; the tool will then use the case papers as constraints and return a set of papers where the set 1) is a subset of all papers associated with the given texts or terms; 2) contains the case papers; 3) is as small as possible.
** By Nov. 27: implement literature corpus visualizations
*** (By Nov. 13) theme river visualization that shows how a set of concepts contained in a body of texts (e.g. a grant proposal; a notebook kept by the researcher) evolves over time - what concepts have been added / removed? how much evidence has been added for each concept?
*** (By Nov. 27) refined user interface for exploring the set of concepts and evidence (network visualization?)
* '''Two VIS talks'''
** By Oct. 2: give practice talks to the speech and writing coach
** By Oct. 9: give practice talks to scivis / dhlgroup
** By Oct. 30: deliver the talks at VIS!
* '''Event sequence visualization paper'''
**<s>By Sep. 11: first draft of the blog post sent</s>
** By Sep. 23: second revision of the blog post ready
* '''BraiNet user study'''
** By Dec 4: run a pilot study with two participants
** By Dec 11: study design refined based on pilot study

=== [[User:Steven Gomez|Steve]] ===
* '''Dissertation'''
** By June 30: committee settled <span style="color:#00FF00"> ✓</span>
** By June 30: dissertation draft completed and circulated <span style="color:#00FF00"> ✓</span>
*** Address feedback for dissertation as it comes in
** By June 30: get scheduling feedback for committee for mid-August defense <span style="color:#00FF00"> ✓</span>
** By early July: resolve defense scheduling <span style="color:#00FF00"> ✓</span>
** By mid July: submit defense, date, meta-data, and thesis draft to Lauren <span style="color:#00FF00"> ✓</span>
** By mid August: defend thesis, get notes for dissertation revisions from committee
** By mid September: do any necessary dissertation revisions, get signatures from committee, and submit

* '''TVCG/VAST paper'''
** By June 20: Use R to get CI intervals for correlations <span style="color:#00FF00"> ✓</span>
** By June 26: Help Hua with response, submission for conditional acceptance <span style="color:#00FF00"> ✓</span>

* '''NSF Proposal on Cognitive/Task Modeling'''
** Meet weekly to stay on track for September deadline
** By June 25:
*** Gather notes from all past proposals <span style="color:#00FF00"> ✓</span>
*** Write up independent thoughts about new proposal, then compare with David's Expedition notes
** By mid July: rough draft of new proposal based on notes, discussions
** By August: help prepare solid final draft
** Submit in FastLane
*** By September 16 for MEDIUM
*** By September 24 for LARGE
*** By November 18 for SMALL

* '''Other'''
** Review workshops for VIS as possible project venues
** Find housing in Boston <span style="color:#00FF00"> ✓</span>

=== [[User:Ryan Cabeen|Ryan]] ===

* RP Imaging Studies
** Send update for request for additional bundles in SMART data
** Iron out details for South Africa analysis (group meeting on 6/10)
*** ''Update'': fiber bundle length (need a couple more bundles)
*** ''Update'': graph-based analysis w/ Laurie
** Keep up with paper reviewing and other requests
* Diffusion outside brain
** ''Update'': support image analysis w/ Trey Crisco & Ed Walsh
* Yurt
** Demo as needed
** Provide support for CS137-related things
** Help Johannes with getting up to speed for TAing
** ''Update'': Get some brain data in
* Thesis work
** Complete a rough draft of dissertation
** Work with Dan to get bipolar imaging paper out
** ''Update'': Put together documentation of various analyses and tools

=== [[User:David Laidlaw|David]] ===

* yurt
** working well enough for cs137
** working well enough for VT experiment
** press
** paper out about R&D, model on Cruz
** hw and low-level software testing/reliability plan
** application software development easier (asf?)
* VT
** first experiment complete, written, and out!
* orthopedics
** tools continuing to run well (despite upgrade)
** renewal with Trey
** diffusion imaging
* longer-term funding progress
** cognition
** VR
** brains
** trey
** STC?
* good CS137
* keep all advisees moving along appropriately

=== [[User:Wesley Miller|Wesley]] ===

* CAVE/YURT
** Complete or nearly complete user study with Johannes
** Help out with Demos when needed
** Add new applications for use in YURT

* Fitts' Law
** Work on paper with HCI seminar group

* Third Person Perspective
** Make plans for future of 3PP project or something derivative

* Hospital
** Discuss potential projects with Derek

=== [[User:Johannes Novotny|Johannes]] ===

* Cave/Yurt
** Complete user study with Wesley
** Design next experiment for VT project
** Work on VR volume visualization (3D Visualizer/CaveVOX/...)
** Get more concrete collaboration with students of Robbert Creton or Kristi Wharton
** Help out with Demos when needed
** Explore use of VTK in VRG3D

* CS137
** Set up clean development branch for CavePainting
** Get acquainted with the sourcecode
** Fix some bugs if possible

* Fitts' Law
** Work on paper with HCI seminar group

* Thesis Project
** Restart discussions with Derek and Kristi
** Explore collaborations for genome folding visualizations
** by December: Create Thesis proposal draft

=== [[User:Tom Sgouros|Tom]] ===

=== [[User:Josh Tveite|Josh]] ===

* General
** Become acquainted with the department and Providence in general.
** Develop a vision for research and start finding projects to work on.
** Improve artistic skill in order to be able to communicate ideas more effectively.

* Yurt/Cave
** Start to learn how to work in the Yurt effectively (likely through taking CS 137)
** Find a project to work on in the Yurt.

=== [[User:Wallace Lages|Wallace]] ===

*Finish experiment and write IEEEVR paper

* Finish VR volume renderer
** last changes: added another kernel for gpu pre processing, copying one PBO to another in the GPU. Simple kernel (just remove part of the dataset)
** Issues: Interaction pass takes a long time on CPU
** Options: add spatial structure, perform interaction on GPU
** Other improvements: 1) reduce original RGBA 3d texture to mono -> improve memory usage 2) remove 3d texture altogether and implement filtering in the shader -> possible faster copy in one pass, 3) change to splatting 4) refactor code

*Reimplement Volume Cracker like interaction
**Implement on VR
**Develop hardware

* Finish new interaction technique
**Finish design
**Implement software
**Implement technique on VR



----

== Past Plans and Goals ==
* [[/Summer 2015|Summer '15]]
* [[/Spring 2015|Spring '15]]
* [[/Fall 2014|Fall '14]]
* [[/Spring-Summer 2014|Spring-Summer '14]]
* [[/Summer-Fall 2013|Summer-Fall '13]]
* [[/Spring 2013|Spring '13]]
* [[/Fall 2012|Fall '12]]
* [[/Summer 2012|Summer '12]]
* [[/Spring 2012|Spring '12]]
* [[/Summer-Fall 2011|Summer-Fall '11]]
* [[/Spring 2011|Spring '11]]
* [[/Summer-Fall 2010|Summer-Fall '10]]
* [[/Spring 2010|Spring '10]]
* [[/Fall 2009|Fall '09]]
* [[/Summer 2009|Summer '09]]
* [[/Spring 2009|Spring '09]]
* [[/Fall 2008|Fall '08]]
* [http://sites.google.com/a/vis.cs.brown.edu/collaboravis/Home/summer-08-group-goals Summer '08]

[[Category:VRL]]

Plans and Goals

2015-06-04T18:35:13Z

Johannes Novotny:

Plans and Goals

2015-01-26T16:00:40Z

Johannes Novotny:

On this page the members of the [[VRL]] record and refine their goals for the current semester. This is a living document in which [[dhl]] will provide feedback. See the bottom of the page for links to past plans & goals documents.

== Current Schedule ==
Meetings are on Mondays. The authoritative list is in dhl's calendar.

== Current Plans and Goals (Spring '15) ==

=== [[User:Connor Gramazio|Connor]] ===
'''<span style="color:steelblue">Boldfaced</span>''' goals are those that mark the high-level success of each project.

===== '''Genomics VIS Project''' =====
* By 1/12 (over break):
** change abstract to be more of a paper abstract and less of a book abstract
** make paper skeleton with clear evaluation plans, methods, and expected results
** determine if making the GD3 Notebook as a third tool is manageable given pre-VIS workload
* By 1/19: '''<span style="color:steelblue">Complete and freeze GD3 v1 visualization library development</span>'''
** Don't do more than bringing refactored library up to existing capabilities.
* By 1/19: E-mail and recruit >=5 experts for each tool that is being evaluated
* By 2/2: Have all experts scheduled and have the evaluations set in stone and methods/procedure written into paper draft
* By 2/20: '''<span style="color:steelblue">Have all evaluation completed and coded</span>'''
* By 3/9: E-mail David a complete, rough paper draft for VIS submission
* By 3/16: Send out revised draft to all authors
* By 3/21: Submit abstract to VIS and have a paper draft that is submittable
* By 3/31: '''<span style="color:steelblue">Submit genomics viz paper to VIS</span>'''

===== '''Color palette picker''' =====
* By 1/12 (over break):
** Brainstorm a list of possible evaluations with total >= 5 possible evaluations
** Send an abstract to Karen and David and a one-paragraph description of the evaluation plan
** Write paper skeleton
* By 1/19: '''<span style="color:steelblue">Finish tool</span>'''
* By 1/26: Have a meeting/demo with David and Karen to get feedback on evaluation
* By 1/26: Run pilot MTurk evaluations on discerinability and preference
* By 2/9: '''<span style="color:steelblue">Have complete data from MTurk discernability and preference evaluations</span>'''
* By 3/2: E-Mail David and Karen a complete, rough paper draft for VIS submission
* By 3/16: Have a submittable draft ready
* By 3/21: Submit abstract to VIS
* By 3/31: '''<span style="color:steelblue">Submit color palette paper to VIS</span>'''

===== '''Continuous Colormaps''' =====
* By 1/26: Meet with David and Karen about project (joint with color palette modeling)
* By 1/26: Freeze data collection
* By 2/19: Have a complete, rough paper draft for VIS submission
* By 3/21: Submit abstract to VIS
* By 3/31: '''<span style="color:steelblue">Submit color map paper to VIS</span>'''

===== '''Other''' =====
* '''<span style="color:steelblue">E-mail updates more than you think you need to (i.e., weekly updates)</span>'''
* '''<span style="color:steelblue">Sign up for Sheridan Center's teaching certification for Fall 2015 semester</span>'''
* Work on the outcome of the MAGI submission to Nature Methods
* Practice fast writing

=== [[User:Hua Guo|Hua]] ===

* Thesis proposal
** Send proposal to committee members
** Give the proposal talk

* Interaction history analysis paper
** Finish preliminary analysis with Markov chain and action / component frequency features (1/31)
** Submit to VIS (3/31)

* BraiNet
** Interface redesign sketched out

=== [[User:Steven Gomez|Steve]] ===

* Have a good job lined up for the fall
** Keep list of jobs/postdoc opportunities up-to-date
** Send out applications
** Research statement by '''end of January'''
** Do a practice job talk by '''end of January'''
** Do a good interview at MIT/LL '''(TBD)'''
* Integrating automatic evaluations with github
** Clean up MTurk scripts to link into git hook by '''<s>mid</s> end of January'''
** Run case study on alternative vis designs from our VAST 2014 paper by '''end of Feb'''
** Draft VIS paper by '''mid February'''
** Submit '''end of March'''
* Dissertation
** Tex with outline in private GitHub repo by '''10/1''' ✓
** Follow chapter schedule in my [[Media:DCP_steveg_sanitized.pdf|Brown GS 6th-year proposal (DCP)]]
*** By '''12/8''', draft Chapter 3: Modeling Task Performance with Non-Experts (from CHI '12 paper) ✓
*** By '''12/15''', draft Chapter 4: Modeling Gaze Behaviors with Non-Experts (from TVCG paper in submission) ✓
*** By '''12/22''', draft Chapter 5: Measuring Insights and Task Performance for Visual Analytics (from VAST '14 paper) ✓
*** By '''1/12''', draft Chapter 6: Crowdsourced Evaluation Framework (from new experiment)
*** By '''1/19''', draft Chapter 7: Conclusions
*** By '''1/26''', draft Chapter 1: Introduction
*** By '''2/9''', draft Chapter 2: Background
*** By '''3/2''', draft 2 of full document done and circulated to committee
*** By '''mid March''', set defense date and time, run through the [http://cs.brown.edu/degrees/doctoral/proposal/Thesis_Proposal_Checklist.pdf thesis checklist]
*** By '''mid April''', defense!
*** '''5/1''': Hard deadline for dissertation submission for May Commencement, "apply to graduate" on Banner
* Misc
** Help David and Hua successfully submit NSF grant, deadline on '''1/12''' ✓
** Due my reviews/coordinating as a CHI Works-in-progress PC member, wrapped up by '''1/29'''
** Check up on TVCG paper submitted last semester: any revisions needed?
** Make at least one of my private github repos into a public one

=== [[User:Ryan Cabeen|Ryan]] ===

* South Africa
** results created and shared
** include multi-fiber methods
* Dan pediatric bipolar
** complete paper writing
** include region segmentation methods
** consider potential additional pubs
* Edinburgh
** make data resource paper
** option: multi-fiber atlas?
** option: reproducing aging studies, e.g. STL FBL
* Multi-fiber estimation
** put on finishing touches on journal paper and submit
* Thesis writing
** make some progress on introduction

=== [[User:David Laidlaw|David]] ===

* cave running and with demos and working for may opening
** cavePainting, advisor, cs137 examples, VT project
** hw and low-level software testing/reliability plan
** application software development easier
* longer-term funding progress
** some specific targets for proposals: cave, cognition, expedition, brains
* full Bowman experiment run by Wesley and/or Johannes in Yurt
* good CS16
* keep all advisees moving along appropriately

=== [[User:Wesley Miller|Wesley]] ===

=== [[User:Johannes Novotny|Johannes]] ===

'''Coursework'''
* HCI Seminar
* Introduction to Data Science
* (Vagabonding) Introduction to Machine Learning

'''CAVE/YURT'''
* By '''2/2''', Discuss current results with VT and Bireswar
** Update experiment script vs. keeping current users
* By '''2/8''', fix 90/270 degree virtual walls in VRUI
* By '''2/15''', continue user study at Granoff CAVE
* By '''2/21''', setup complete evaluation framework for statistical significant effects
** in Google docs or repository to share with Wallace
* By '''3/14''', complete 32 users at Granoff CAVE and YURT
* By '''3/21''', integrate Scalable into VRUI with Wesley
* By '''4/13''', publication outline and draft for introduction and background sections
* By '''4/20''', complete all 64 users
* By '''5/5''', paper draft

'''Collaborations'''
* By '''mid February''', set up meetings with prospective collaborators
** Dereck Merck - 5 minute presentation on 3D US smart visibility at radiology meeting
** Kristi Wharton - time series confocal microscopy data in the cave
** search for more collaborators
* By '''mid February''', complete paper for Computers & Geosciences

=== [[User:Tom Sgouros|Tom]] ===

* wrist/thumb
* yurt



----

== Past Plans and Goals ==
* [[/Fall 2014|Fall '14]]
* [[/Spring-Summer 2014|Spring-Summer '14]]
* [[/Summer-Fall 2013|Summer-Fall '13]]
* [[/Spring 2013|Spring '13]]
* [[/Fall 2012|Fall '12]]
* [[/Summer 2012|Summer '12]]
* [[/Spring 2012|Spring '12]]
* [[/Summer-Fall 2011|Summer-Fall '11]]
* [[/Spring 2011|Spring '11]]
* [[/Summer-Fall 2010|Summer-Fall '10]]
* [[/Spring 2010|Spring '10]]
* [[/Fall 2009|Fall '09]]
* [[/Summer 2009|Summer '09]]
* [[/Spring 2009|Spring '09]]
* [[/Fall 2008|Fall '08]]
* [http://sites.google.com/a/vis.cs.brown.edu/collaboravis/Home/summer-08-group-goals Summer '08]

[[Category:VRL]]

Plans and Goals

2015-01-26T15:59:05Z

Johannes Novotny:

On this page the members of the [[VRL]] record and refine their goals for the current semester. This is a living document in which [[dhl]] will provide feedback. See the bottom of the page for links to past plans & goals documents.

== Current Schedule ==
Meetings are on Mondays. The authoritative list is in dhl's calendar.

== Current Plans and Goals (Spring '15) ==

=== [[User:Connor Gramazio|Connor]] ===
'''<span style="color:steelblue">Boldfaced</span>''' goals are those that mark the high-level success of each project.

===== '''Genomics VIS Project''' =====
* By 1/12 (over break):
** change abstract to be more of a paper abstract and less of a book abstract
** make paper skeleton with clear evaluation plans, methods, and expected results
** determine if making the GD3 Notebook as a third tool is manageable given pre-VIS workload
* By 1/19: '''<span style="color:steelblue">Complete and freeze GD3 v1 visualization library development</span>'''
** Don't do more than bringing refactored library up to existing capabilities.
* By 1/19: E-mail and recruit >=5 experts for each tool that is being evaluated
* By 2/2: Have all experts scheduled and have the evaluations set in stone and methods/procedure written into paper draft
* By 2/20: '''<span style="color:steelblue">Have all evaluation completed and coded</span>'''
* By 3/9: E-mail David a complete, rough paper draft for VIS submission
* By 3/16: Send out revised draft to all authors
* By 3/21: Submit abstract to VIS and have a paper draft that is submittable
* By 3/31: '''<span style="color:steelblue">Submit genomics viz paper to VIS</span>'''

===== '''Color palette picker''' =====
* By 1/12 (over break):
** Brainstorm a list of possible evaluations with total >= 5 possible evaluations
** Send an abstract to Karen and David and a one-paragraph description of the evaluation plan
** Write paper skeleton
* By 1/19: '''<span style="color:steelblue">Finish tool</span>'''
* By 1/26: Have a meeting/demo with David and Karen to get feedback on evaluation
* By 1/26: Run pilot MTurk evaluations on discerinability and preference
* By 2/9: '''<span style="color:steelblue">Have complete data from MTurk discernability and preference evaluations</span>'''
* By 3/2: E-Mail David and Karen a complete, rough paper draft for VIS submission
* By 3/16: Have a submittable draft ready
* By 3/21: Submit abstract to VIS
* By 3/31: '''<span style="color:steelblue">Submit color palette paper to VIS</span>'''

===== '''Continuous Colormaps''' =====
* By 1/26: Meet with David and Karen about project (joint with color palette modeling)
* By 1/26: Freeze data collection
* By 2/19: Have a complete, rough paper draft for VIS submission
* By 3/21: Submit abstract to VIS
* By 3/31: '''<span style="color:steelblue">Submit color map paper to VIS</span>'''

===== '''Other''' =====
* '''<span style="color:steelblue">E-mail updates more than you think you need to (i.e., weekly updates)</span>'''
* '''<span style="color:steelblue">Sign up for Sheridan Center's teaching certification for Fall 2015 semester</span>'''
* Work on the outcome of the MAGI submission to Nature Methods
* Practice fast writing

=== [[User:Hua Guo|Hua]] ===

* Thesis proposal
** Send proposal to committee members
** Give the proposal talk

* Interaction history analysis paper
** Finish preliminary analysis with Markov chain and action / component frequency features (1/31)
** Submit to VIS (3/31)

* BraiNet
** Interface redesign sketched out

=== [[User:Steven Gomez|Steve]] ===

* Have a good job lined up for the fall
** Keep list of jobs/postdoc opportunities up-to-date
** Send out applications
** Research statement by '''end of January'''
** Do a practice job talk by '''end of January'''
** Do a good interview at MIT/LL '''(TBD)'''
* Integrating automatic evaluations with github
** Clean up MTurk scripts to link into git hook by '''<s>mid</s> end of January'''
** Run case study on alternative vis designs from our VAST 2014 paper by '''end of Feb'''
** Draft VIS paper by '''mid February'''
** Submit '''end of March'''
* Dissertation
** Tex with outline in private GitHub repo by '''10/1''' ✓
** Follow chapter schedule in my [[Media:DCP_steveg_sanitized.pdf|Brown GS 6th-year proposal (DCP)]]
*** By '''12/8''', draft Chapter 3: Modeling Task Performance with Non-Experts (from CHI '12 paper) ✓
*** By '''12/15''', draft Chapter 4: Modeling Gaze Behaviors with Non-Experts (from TVCG paper in submission) ✓
*** By '''12/22''', draft Chapter 5: Measuring Insights and Task Performance for Visual Analytics (from VAST '14 paper) ✓
*** By '''1/12''', draft Chapter 6: Crowdsourced Evaluation Framework (from new experiment)
*** By '''1/19''', draft Chapter 7: Conclusions
*** By '''1/26''', draft Chapter 1: Introduction
*** By '''2/9''', draft Chapter 2: Background
*** By '''3/2''', draft 2 of full document done and circulated to committee
*** By '''mid March''', set defense date and time, run through the [http://cs.brown.edu/degrees/doctoral/proposal/Thesis_Proposal_Checklist.pdf thesis checklist]
*** By '''mid April''', defense!
*** '''5/1''': Hard deadline for dissertation submission for May Commencement, "apply to graduate" on Banner
* Misc
** Help David and Hua successfully submit NSF grant, deadline on '''1/12''' ✓
** Due my reviews/coordinating as a CHI Works-in-progress PC member, wrapped up by '''1/29'''
** Check up on TVCG paper submitted last semester: any revisions needed?
** Make at least one of my private github repos into a public one

=== [[User:Ryan Cabeen|Ryan]] ===

* South Africa
** results created and shared
** include multi-fiber methods
* Dan pediatric bipolar
** complete paper writing
** include region segmentation methods
** consider potential additional pubs
* Edinburgh
** make data resource paper
** option: multi-fiber atlas?
** option: reproducing aging studies, e.g. STL FBL
* Multi-fiber estimation
** put on finishing touches on journal paper and submit
* Thesis writing
** make some progress on introduction

=== [[User:David Laidlaw|David]] ===

* cave running and with demos and working for may opening
** cavePainting, advisor, cs137 examples, VT project
** hw and low-level software testing/reliability plan
** application software development easier
* longer-term funding progress
** some specific targets for proposals: cave, cognition, expedition, brains
* full Bowman experiment run by Wesley and/or Johannes in Yurt
* good CS16
* keep all advisees moving along appropriately

=== [[User:Wesley Miller|Wesley]] ===

=== [[User:Johannes Novotny|Johannes]] ===

===== Coursework =====
* HCI Seminar
* Introduction to Data Science
* (Vagabonding) Introduction to Machine Learning

===== CAVE/YURT =====
* By '''2/2''', Discuss current results with VT and Bireswar
** Update experiment script vs. keeping current users
* By '''2/8''', fix 90/270 degree virtual walls in VRUI
* By '''2/15''', continue user study at Granoff CAVE
* By '''2/21''', setup complete evaluation framework for statistical significant effects
** in Google docs or repository to share with Wallace
* By '''3/14''', complete 32 users at Granoff CAVE and YURT
* By '''3/21''', integrate Scalable into VRUI with Wesley
* By '''4/13''', publication outline and draft for introduction and background sections
* By '''4/20''', complete all 64 users
* By '''5/5''', paper draft

===== Collaborations =====
* By '''mid February''', set up meetings with prospective collaborators
** Dereck Merck - 5 minute presentation on 3D US smart visibility at radiology meeting
** Kristi Wharton - time series confocal microscopy data in the cave
** search for more collaborators
* By '''mid February''', complete paper for Computers & Geosciences

=== [[User:Tom Sgouros|Tom]] ===

* wrist/thumb
* yurt



----

== Past Plans and Goals ==
* [[/Fall 2014|Fall '14]]
* [[/Spring-Summer 2014|Spring-Summer '14]]
* [[/Summer-Fall 2013|Summer-Fall '13]]
* [[/Spring 2013|Spring '13]]
* [[/Fall 2012|Fall '12]]
* [[/Summer 2012|Summer '12]]
* [[/Spring 2012|Spring '12]]
* [[/Summer-Fall 2011|Summer-Fall '11]]
* [[/Spring 2011|Spring '11]]
* [[/Summer-Fall 2010|Summer-Fall '10]]
* [[/Spring 2010|Spring '10]]
* [[/Fall 2009|Fall '09]]
* [[/Summer 2009|Summer '09]]
* [[/Spring 2009|Spring '09]]
* [[/Fall 2008|Fall '08]]
* [http://sites.google.com/a/vis.cs.brown.edu/collaboravis/Home/summer-08-group-goals Summer '08]

[[Category:VRL]]

Plans and Goals

2015-01-26T06:00:50Z

Johannes Novotny:

On this page the members of the [[VRL]] record and refine their goals for the current semester. This is a living document in which [[dhl]] will provide feedback. See the bottom of the page for links to past plans & goals documents.

== Current Schedule ==
Meetings are on Mondays. The authoritative list is in dhl's calendar.

== Current Plans and Goals (Spring '15) ==

=== [[User:Connor Gramazio|Connor]] ===
'''<span style="color:steelblue">Boldfaced</span>''' goals are those that mark the high-level success of each project.

===== '''Genomics VIS Project''' =====
* By 1/12 (over break):
** change abstract to be more of a paper abstract and less of a book abstract
** make paper skeleton with clear evaluation plans, methods, and expected results
** determine if making the GD3 Notebook as a third tool is manageable given pre-VIS workload
* By 1/19: '''<span style="color:steelblue">Complete and freeze GD3 v1 visualization library development</span>'''
** Don't do more than bringing refactored library up to existing capabilities.
* By 1/19: E-mail and recruit >=5 experts for each tool that is being evaluated
* By 2/2: Have all experts scheduled and have the evaluations set in stone and methods/procedure written into paper draft
* By 2/20: '''<span style="color:steelblue">Have all evaluation completed and coded</span>'''
* By 3/9: E-mail David a complete, rough paper draft for VIS submission
* By 3/16: Send out revised draft to all authors
* By 3/21: Submit abstract to VIS and have a paper draft that is submittable
* By 3/31: '''<span style="color:steelblue">Submit genomics viz paper to VIS</span>'''

===== '''Color palette picker''' =====
* By 1/12 (over break):
** Brainstorm a list of possible evaluations with total >= 5 possible evaluations
** Send an abstract to Karen and David and a one-paragraph description of the evaluation plan
** Write paper skeleton
* By 1/19: '''<span style="color:steelblue">Finish tool</span>'''
* By 1/26: Have a meeting/demo with David and Karen to get feedback on evaluation
* By 1/26: Run pilot MTurk evaluations on discerinability and preference
* By 2/9: '''<span style="color:steelblue">Have complete data from MTurk discernability and preference evaluations</span>'''
* By 3/2: E-Mail David and Karen a complete, rough paper draft for VIS submission
* By 3/16: Have a submittable draft ready
* By 3/21: Submit abstract to VIS
* By 3/31: '''<span style="color:steelblue">Submit color palette paper to VIS</span>'''

===== '''Continuous Colormaps''' =====
* By 1/26: Meet with David and Karen about project (joint with color palette modeling)
* By 1/26: Freeze data collection
* By 2/19: Have a complete, rough paper draft for VIS submission
* By 3/21: Submit abstract to VIS
* By 3/31: '''<span style="color:steelblue">Submit color map paper to VIS</span>'''

===== '''Other''' =====
* '''<span style="color:steelblue">E-mail updates more than you think you need to (i.e., weekly updates)</span>'''
* '''<span style="color:steelblue">Sign up for Sheridan Center's teaching certification for Fall 2015 semester</span>'''
* Work on the outcome of the MAGI submission to Nature Methods
* Practice fast writing

=== [[User:Hua Guo|Hua]] ===

* Thesis proposal
** Send proposal to committee members
** Give the proposal talk

* Interaction history analysis paper
** Finish preliminary analysis with Markov chain and action / component frequency features (1/31)
** Submit to VIS (3/31)

* BraiNet
** Interface redesign sketched out

=== [[User:Steven Gomez|Steve]] ===

* Have a good job lined up for the fall
** Keep list of jobs/postdoc opportunities up-to-date
** Send out applications
** Research statement by '''end of January'''
** Do a practice job talk by '''end of January'''
** Do a good interview at MIT/LL '''(TBD)'''
* Integrating automatic evaluations with github
** Clean up MTurk scripts to link into git hook by '''<s>mid</s> end of January'''
** Run case study on alternative vis designs from our VAST 2014 paper by '''end of Feb'''
** Draft VIS paper by '''mid February'''
** Submit '''end of March'''
* Dissertation
** Tex with outline in private GitHub repo by '''10/1''' ✓
** Follow chapter schedule in my [[Media:DCP_steveg_sanitized.pdf|Brown GS 6th-year proposal (DCP)]]
*** By '''12/8''', draft Chapter 3: Modeling Task Performance with Non-Experts (from CHI '12 paper) ✓
*** By '''12/15''', draft Chapter 4: Modeling Gaze Behaviors with Non-Experts (from TVCG paper in submission) ✓
*** By '''12/22''', draft Chapter 5: Measuring Insights and Task Performance for Visual Analytics (from VAST '14 paper) ✓
*** By '''1/12''', draft Chapter 6: Crowdsourced Evaluation Framework (from new experiment)
*** By '''1/19''', draft Chapter 7: Conclusions
*** By '''1/26''', draft Chapter 1: Introduction
*** By '''2/9''', draft Chapter 2: Background
*** By '''3/2''', draft 2 of full document done and circulated to committee
*** By '''mid March''', set defense date and time, run through the [http://cs.brown.edu/degrees/doctoral/proposal/Thesis_Proposal_Checklist.pdf thesis checklist]
*** By '''mid April''', defense!
*** '''5/1''': Hard deadline for dissertation submission for May Commencement, "apply to graduate" on Banner
* Misc
** Help David and Hua successfully submit NSF grant, deadline on '''1/12''' ✓
** Due my reviews/coordinating as a CHI Works-in-progress PC member, wrapped up by '''1/29'''
** Check up on TVCG paper submitted last semester: any revisions needed?
** Make at least one of my private github repos into a public one

=== [[User:Ryan Cabeen|Ryan]] ===

* South Africa
** results created and shared
** include multi-fiber methods
* Dan pediatric bipolar
** complete paper writing
** include region segmentation methods
** consider potential additional pubs
* Edinburgh
** make data resource paper
** option: multi-fiber atlas?
** option: reproducing aging studies, e.g. STL FBL
* Multi-fiber estimation
** put on finishing touches on journal paper and submit
* Thesis writing
** make some progress on introduction

=== [[User:David Laidlaw|David]] ===

* cave running and with demos and working for may opening
** cavePainting, advisor, cs137 examples, VT project
** hw and low-level software testing/reliability plan
** application software development easier
* longer-term funding progress
** some specific targets for proposals: cave, cognition, expedition, brains
* full Bowman experiment run by Wesley and/or Johannes in Yurt
* good CS16
* keep all advisees moving along appropriately

=== [[User:Wesley Miller|Wesley]] ===

=== [[User:Johannes Novotny|Johannes]] ===

===== Coursework =====
* HCI Seminar
* Introduction to Data Science
* (Vagabonding) Introduction to Machine Learning

===== CAVE/YURT =====
* By '''2/1''', Discuss current results with VT and Bireswar
** Update experiment script vs. keeping current users
* By '''2/8''', fix 90/270 degree virtual walls in VRUI
* By '''2/15''', continue user study at Granoff CAVE
* By '''2/21''', setup complete evaluation framework for statistical significant effects
** in Google docs or repository to share with Wallace
* By '''3/14''', integrate Scalable into VRUI with Wesley
* By '''3/21''', complete 32 users at Granoff CAVE and YURT
* By '''5/5''', complete all 64 users

===== Collaborations =====
* By '''mid February''', set up meetings with prospective collaborators
** Dereck Merck - 5 minute presentation on 3D US smart visibility at radiology meeting
** Kristi Wharton - time series confocal microscopy data in the cave
** search for more collaborators
* By '''mid February''', complete paper for Computers & Geosciences

=== [[User:Tom Sgouros|Tom]] ===

* wrist/thumb
* yurt



----

== Past Plans and Goals ==
* [[/Fall 2014|Fall '14]]
* [[/Spring-Summer 2014|Spring-Summer '14]]
* [[/Summer-Fall 2013|Summer-Fall '13]]
* [[/Spring 2013|Spring '13]]
* [[/Fall 2012|Fall '12]]
* [[/Summer 2012|Summer '12]]
* [[/Spring 2012|Spring '12]]
* [[/Summer-Fall 2011|Summer-Fall '11]]
* [[/Spring 2011|Spring '11]]
* [[/Summer-Fall 2010|Summer-Fall '10]]
* [[/Spring 2010|Spring '10]]
* [[/Fall 2009|Fall '09]]
* [[/Summer 2009|Summer '09]]
* [[/Spring 2009|Spring '09]]
* [[/Fall 2008|Fall '08]]
* [http://sites.google.com/a/vis.cs.brown.edu/collaboravis/Home/summer-08-group-goals Summer '08]

[[Category:VRL]]

Plans and Goals

2015-01-21T20:32:09Z

Johannes Novotny:

On this page the members of the [[VRL]] record and refine their goals for the current semester. This is a living document in which [[dhl]] will provide feedback. See the bottom of the page for links to past plans & goals documents.

== Current Schedule ==
Meetings are on Mondays. The authoritative list is in dhl's calendar.

== Current Plans and Goals (Spring '15) ==

=== [[User:Connor Gramazio|Connor]] ===
'''<span style="color:steelblue">Boldfaced</span>''' goals are those that mark the high-level success of each project.

===== '''Genomics VIS Project''' =====
* By 1/12 (over break):
** change abstract to be more of a paper abstract and less of a book abstract
** make paper skeleton with clear evaluation plans, methods, and expected results
** determine if making the GD3 Notebook as a third tool is manageable given pre-VIS workload
* By 1/19: '''<span style="color:steelblue">Complete and freeze GD3 v1 visualization library development</span>'''
** Don't do more than bringing refactored library up to existing capabilities.
* By 1/19: E-mail and recruit >=5 experts for each tool that is being evaluated
* By 2/2: Have all experts scheduled and have the evaluations set in stone and methods/procedure written into paper draft
* By 2/20: '''<span style="color:steelblue">Have all evaluation completed and coded</span>'''
* By 3/9: E-mail David a complete, rough paper draft for VIS submission
* By 3/16: Send out revised draft to all authors
* By 3/21: Submit abstract to VIS and have a paper draft that is submittable
* By 3/31: '''<span style="color:steelblue">Submit genomics viz paper to VIS</span>'''

===== '''Color palette picker''' =====
* By 1/12 (over break):
** Brainstorm a list of possible evaluations with total >= 5 possible evaluations
** Send an abstract to Karen and David and a one-paragraph description of the evaluation plan
** Write paper skeleton
* By 1/19: '''<span style="color:steelblue">Finish tool</span>'''
* By 1/26: Have a meeting/demo with David and Karen to get feedback on evaluation
* By 1/26: Run pilot MTurk evaluations on discerinability and preference
* By 2/9: '''<span style="color:steelblue">Have complete data from MTurk discernability and preference evaluations</span>'''
* By 3/2: E-Mail David and Karen a complete, rough paper draft for VIS submission
* By 3/16: Have a submittable draft ready
* By 3/21: Submit abstract to VIS
* By 3/31: '''<span style="color:steelblue">Submit color palette paper to VIS</span>'''

===== '''Continuous Colormaps''' =====
* By 1/26: Meet with David and Karen about project (joint with color palette modeling)
* By 1/26: Freeze data collection
* By 2/19: Have a complete, rough paper draft for VIS submission
* By 3/21: Submit abstract to VIS
* By 3/31: '''<span style="color:steelblue">Submit color map paper to VIS</span>'''

===== '''Other''' =====
* '''<span style="color:steelblue">E-mail updates more than you think you need to (i.e., weekly updates)</span>'''
* '''<span style="color:steelblue">Sign up for Sheridan Center's teaching certification for Fall 2015 semester</span>'''
* Work on the outcome of the MAGI submission to Nature Methods
* Practice fast writing

=== [[User:Hua Guo|Hua]] ===

* Thesis proposal
** Send proposal to committee members
** Give the proposal talk

* Interaction history analysis paper
** Finish preliminary analysis with Markov chain and action / component frequency features (1/31)
** Submit to VIS (3/31)

* BraiNet
** Interface redesign sketched out

=== [[User:Steven Gomez|Steve]] ===

* Finish crowd-eyetracking project
** Follow-up MTurk experiment run by '''9/12''', data analyzed by '''9/24''' with Radu ✓
** Circulate updated TVCG draft with results by '''9/30''' and submit '''<s>early October</s> ✓
* Integrating automatic evaluations with github
** Clean up MTurk scripts to link into git hook by '''<s>mid</s> end of October''' [in progress]
** Run case study on alternative vis designs from our VAST 2014 paper by '''end of November'''
** Draft VIS paper by '''mid December'''
** Submit '''end of March'''
* Assist Hua with Aptima study and report
** Report due to Aptima by '''mid October''' ✓
** Outline of paper on individual differences in visualization by '''end of October'''
* Have a good VAST task in Paris (11/9-11/16)
** Iterate on presentation several times, practice at scivis on '''10/28''' ✓
** Practice talk at Tufts on '''10/29''' ✓
** Network with colleagues at conference ✓
* Have a job next fall!
** List of postdoc opportunities compiled before Paris trip, by '''11/5''' [in progress]
** Teaching statement from notes by '''end of September''' ✓
** Research statement by '''end of November''' (when git study wraps up)
* Dissertation
** Tex with outline in private GitHub repo by '''10/1''' ✓
** Follow chapter schedule in my [[Media:DCP_steveg_sanitized.pdf|Brown GS 6th-year proposal (DCP)]]
*** By '''12/8''', draft Chapter 3: Modeling Task Performance with Non-Experts (from CHI '12 paper) ✓
*** By '''12/15''', draft Chapter 4: Modeling Gaze Behaviors with Non-Experts (from TVCG paper in submission) ✓
*** By '''12/22''', draft Chapter 5: Measuring Insights and Task Performance for Visual Analytics (from VAST '14 paper)
*** By '''1/12''', draft Chapter 6: Crowdsourced Evaluation Framework (from new experiment)
*** By '''1/19''', draft Chapter 7: Conclusions
*** By '''1/26''', draft Chapter 1: Introduction
*** By '''2/9''', draft Chapter 2: Background
*** By '''3/2''', draft 2 of full document done and circulated to committee
*** By '''mid March''', set defense date and time, run through the [http://cs.brown.edu/degrees/doctoral/proposal/Thesis_Proposal_Checklist.pdf thesis checklist]
*** By '''mid April''', defense!
*** '''5/1''': Hard deadline for dissertation submission, "apply to graduate" on Banner

* Misc
** Be a helpful TA for CS237 ✓

=== [[User:Ryan Cabeen|Ryan]] ===

* South Africa
** results created and shared
** include multi-fiber methods
* Dan pediatric bipolar
** complete paper writing
** include region segmentation methods
** consider potential additional pubs
* Edinburgh
** make data resource paper
** option: multi-fiber atlas?
** option: reproducing aging studies, e.g. STL FBL
* Multi-fiber estimation
** put on finishing touches on journal paper and submit
* Thesis writing
** make some progress on introduction

=== [[User:David Laidlaw|David]] ===

* cave running and with demos and working for may opening
** cavePainting, advisor, cs137 examples, VT project
** hw and low-level software testing/reliability plan
** application software development easier
* longer-term funding progress
** some specific targets for proposals: cave, cognition, expedition, brains
* full Bowman experiment run by Wesley and/or Johannes in Yurt
* good CS16
* keep all advisees moving along appropriately

=== [[User:Wesley Miller|Wesley]] ===

* Choose and complete one of CSCI2300 or CSCI2240
* Modify Vrui to run with Scalable in the YURT
** Prototype by 3/14
* Modify Vrui to have the virtual walls vislet
** Done by 2/8
* Continue isosurface project
** Meting with collaborators about differing results so far by 2/1
** Complete statistical analysis framework with Johannes by 2/21
** Study 32 students by 3/21
** Study 32 more students by 5/5
* Explore more avenues for independent research
** Gather information for discussion with David by 2/9

=== [[User:Johannes Novotny|Johannes]] ===

===== Coursework =====
(Currently Shopping)
* HCI Seminar
* Introduction to Data Science
* Introduction to Machine Learning
* Interactive Computer Graphics

===== CAVE/YURT =====
* By '''2/1''', Discuss current results with VT and Bireswar
** Update experiment script vs. keeping current users
* By '''2/8''', fix 90/270 degree virtual walls in VRUI
* By '''2/15''', continue user study at Granoff CAVE
* By '''2/21''', setup complete evaluation framework for statistical significant effects
** in Google docs or repository to share with Wallace
* By '''3/14''', integrate Scalable into VRUI with Wesley
* By '''3/21''', complete 32 users at Granoff CAVE and YURT
* By '''5/5''', complete all 64 users

===== Collaborations =====
* By '''mid February''', set up meetings with prospective collaborators
** Dereck Merck - 5 minute presentation on 3D US smart visibility at radiology meeting
** Kristi Wharton - time series confocal microscopy data in the cave
** search for more collaborators
* By '''mid February''', complete paper for Computers & Geosciences

=== [[User:Tom Sgouros|Tom]] ===

* wrist/thumb
* yurt



----

== Past Plans and Goals ==
* [[/Fall 2014|Fall '14]]
* [[/Spring-Summer 2014|Spring-Summer '14]]
* [[/Summer-Fall 2013|Summer-Fall '13]]
* [[/Spring 2013|Spring '13]]
* [[/Fall 2012|Fall '12]]
* [[/Summer 2012|Summer '12]]
* [[/Spring 2012|Spring '12]]
* [[/Summer-Fall 2011|Summer-Fall '11]]
* [[/Spring 2011|Spring '11]]
* [[/Summer-Fall 2010|Summer-Fall '10]]
* [[/Spring 2010|Spring '10]]
* [[/Fall 2009|Fall '09]]
* [[/Summer 2009|Summer '09]]
* [[/Spring 2009|Spring '09]]
* [[/Fall 2008|Fall '08]]
* [http://sites.google.com/a/vis.cs.brown.edu/collaboravis/Home/summer-08-group-goals Summer '08]

[[Category:VRL]]

VR Display Evaluation

2014-11-07T20:49:59Z

Johannes Novotny:

Info page for the (CS237) Interdisciplinary Scientific Visualization project:
= Evaluating Virtual Reality Displays for Isosurface Rendering of Beetle Tracheal Systems =

Contacts:

[mailto:wmiller@cs.brown.edu Wesley Miller]

[mailto:novotny@cs.brown.edu Johannes Novotny]

Collaborators:

[mailto:dbowman@cs.vt.edu Doug Bowman]

[mailto:wlages@vt.edu Wallace S. Lages]

== MeshViewer ==

=== Setup ===
* get CCV, "cave-server" and CS accounts
* setup ssh access from CCV and "Cave-server" to CS
* in CCV and "Cave-server":
** append to .bashrc:
<pre style="white-space: pre-wrap;
white-space: -moz-pre-wrap;
white-space: -pre-wrap;
white-space: -o-pre-wrap;
word-wrap: break-word;">
# User specific aliases and functions
export G=~/Sandbox
export CVSROOT=<enter your CS username>@ssh.cs.brown.edu:/research/graphics/cvsroot
export VISLETS=$G/install_linux/etc/
export CAVE=10.2.128.224\
</pre>
* in "cave-server":$G
** cvs co $CVSROOT/import/vrui
** cvs co $CVSROOT/project/meshviewer

=== Vrui configurations notes ===
* Do not remove the Vislets section (it seems unneccessary, but Vrui/MeshViewer will just segfault without it)
* X permissions on cave-server (still figuring this out, maybe use the cavedemo user)

VR Display Evaluation

2014-11-07T19:55:00Z

Johannes Novotny: Created page with "Info page for the (CS237) Interdisciplinary Scientific Visualization project: = Evaluating Virtual Reality Displays for Isosurface Rendering of Beetle Tracheal Systems = Cont..."

Plans and Goals

2014-11-07T19:22:15Z

Johannes Novotny: /* Current Plans and Goals (Fall '14) */

On this page the members of the [[VRL]] record and refine their goals for the current semester. This is a living document in which [[dhl]] will provide feedback. See the bottom of the page for links to past plans & goals documents.

== Current Schedule ==
Meetings are on Mondays. The authoritative list is in dhl's calendar.

== Current Plans and Goals (Fall '14) ==

=== [[User:Connor Gramazio|Connor]] ===
Weekly work breakdown: 2 days MAGI/2 days HMS/1 day graphical perception
* '''MAGI Collaboration'''
** Submit to Nature Methods as co-author
** Release GD3 genomics visualization library
** '''Sep 23:''' have list of potential research directions
** '''Sep 30:''' distribute MAGI to observation group

* '''Harvard Med Collaboration'''
** '''Sep 19:''' Meet at HMS; outcome: list of specific potential projects
** '''Oct 1:''' Decide on project and send out project outline
** '''End of semester:''' demo functioning prototype
** Outcomes for us:
*** Technique paper on intelligent visual summarization (e.g., accordion mutation matrix attached) using measures like Hamming distance and then more complicated measures to intelligently bin data
*** Short paper on GD3, a generalized genomics visualization toolkit
*** Written log of scenarios and case studies supporting usefulness of an n-color palette generator
** Less polished outcomes for us:
*** Technique for n-wise visualization comparison. Could use interactive filtering or a rendering option to show commonly wanted signatures in data
*** Technique for creating visualization thumbnails using 1000s of SV visualizations as one usage example
** Outcomes for the compbio/bio folks:
*** Deployment of a flexible, reusable visualization library supporting common data formats that eliminates the need to write visualization code for many types of data (GD3)
*** Completion of an interactive tool for analyzing/exploring SV data, aimed at reducing the time spent generating and manually searching through all pairwise combination of SV algorithm output.
**** HMS post-doc said this accounted for 2/3 of his work over the past three months because there's no fast/automated way to do it right now, and it's inherently a visual-based task

* '''Graphical Perception'''
** Have Karen/MTurk experiment results by Sep 12
** Incorporate color saliency mapping into color palette model
** '''End of semester:''' Have LCH-based model running with short paper length description of the model

* '''Other'''
** Give a great talk at VIS
** Redo website before VIS
** Dissertation planning: by end of semester have a written plan on how to tie together graphical perception and genomics viz research

=== [[User:Hua Guo|Hua]] ===

* Thesis proposal
** Finalize committee members
** Send proposal to committee members
** Give a practice talk

* Edge uncertainty paper
** Submit to TVCG

* Aardvark system evaluation
** Run 12 participants by '''Sep.26'''
** Finish the analysis of the first 12 participants by '''Sep.30'''
** Wrap up and finish the final report by '''Oct.15'''
** Further analyze the data using various techniques, e.g. sub-graph extractions and sequence visualizations to identify analysis strategies and relate features to insight generation

* Crowd gaze paper
** Help with the TVCG submission

* BraiNet

=== [[User:Steven Gomez|Steve]] ===

* Finish crowd-eyetracking project
** Follow-up MTurk experiment run by '''9/12''', data analyzed by '''9/24''' with Radu ✓
** Circulate updated TVCG draft with results by '''9/30''' and submit '''<s>early October</s> by October 31''' [in progress]
* Integrating automatic evaluations with github
** Clean up MTurk scripts to link into git hook by '''<s>mid</s> end of October''' [in progress]
** Run case study on alternative vis designs from our VAST 2014 paper by '''end of November'''
** Draft VIS paper by '''mid December'''
** Submit '''end of March'''
* Assist Hua with Aptima study and report
** Report due to Aptima by '''mid October''' ✓
** Outline of paper on individual differences in visualization by '''end of October'''
* Have a good VAST task in Paris (11/9-11/16)
** Iterate on presentation several times, practice at scivis on '''10/28''' ✓
** Practice talk at Tufts on '''10/29''' ✓
** Network with colleagues at conference
* Draft job materials
** List of postdoc opportunities compiled before Paris trip, by '''11/5''' [in progress]
** Teaching statement from notes by '''end of September''' ✓
** Research statement by '''end of November''' (when git study wraps up)
* Dissertation
** Tex with outline in private GitHub repo by '''10/1''' ✓
** Follow chapter schedule in my [[Media:DCP_steveg_sanitized.pdf|Brown GS 6th-year proposal (DCP)]]
*** By '''12/8''', draft Chapter 3: Modeling Task Performance with Non-Experts (from CHI '12 paper)
*** By '''12/15''', draft Chapter 4: Modeling Gaze Behaviors with Non-Experts (from TVCG paper in submission)
*** By '''12/22''', draft Chapter 5: Measuring Insights and Task Performance for Visual Analytics (from VAST '14 paper)
*** By '''1/12''', draft Chapter 6: Crowdsourced Evaluation Framework (from new experiment)
*** By '''1/19''', draft Chapter 7: Conclusions
*** By '''1/26''', draft Chapter 1: Introduction
*** By '''2/9''', draft Chapter 2: Background
*** By '''3/2''', draft 2 of full document done and circulated to committee
*** By '''mid March''', set defense date and time, run through the [http://cs.brown.edu/degrees/doctoral/proposal/Thesis_Proposal_Checklist.pdf thesis checklist]
*** By '''mid April''', defense!
*** '''5/1''': Hard deadline for dissertation submission, "apply to graduate" on Banner

* Misc
** Be a helpful TA for CS237

=== [[User:Ryan Cabeen|Ryan]] ===

* Complete thesis proposal
** Form committee
** Give proposal talk
* Work on papers
** Submit bipolar paper with Dan
** Contribute to Fauxvea work
* Continue work on neuroimaging collabs
** Send quality checks for second timepoint STL data
** Run image analysis for STL and SA studies
** Maintain relationship with folks at RIH
** Contribute to pubs from Rob Paul's group
* Thesis work
** Run experiments comparing methods
** Write TMI paper on multi-fiber processing

=== [[User:David Laidlaw|David]] ===

* good cs237
** some new-cave projects rolling
* cave running and with demos and working in cs237
** hw and low-level software testing/reliability plan
** application software development easier
* longer-term funding progress
** some specific targets for proposals: cave, cognition, expedition, brains
* Bowman experiment run by Wesley

=== [[User:Wesley Miller|Wesley]] ===

=== [[User:Johannes Novotny|Johannes]] ===

* complete CSCI2370 Interdisciplinary Scientific Visualization
** get some experience working with the CAVE (and if possible YURT)
* complete CSCI2951-B Data-Driven Vision and Graphics
* complete Programming Comps
* collect ideas for the Research Comps (or use master thesis if possible)



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== Past Plans and Goals ==
* [[/Spring-Summer 2014|Spring-Summer '14]]
* [[/Summer-Fall 2013|Summer-Fall '13]]
* [[/Spring 2013|Spring '13]]
* [[/Fall 2012|Fall '12]]
* [[/Summer 2012|Summer '12]]
* [[/Spring 2012|Spring '12]]
* [[/Summer-Fall 2011|Summer-Fall '11]]
* [[/Spring 2011|Spring '11]]
* [[/Summer-Fall 2010|Summer-Fall '10]]
* [[/Spring 2010|Spring '10]]
* [[/Fall 2009|Fall '09]]
* [[/Summer 2009|Summer '09]]
* [[/Spring 2009|Spring '09]]
* [[/Fall 2008|Fall '08]]
* [http://sites.google.com/a/vis.cs.brown.edu/collaboravis/Home/summer-08-group-goals Summer '08]

[[Category:VRL]]