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A Python library to wrap functions and functionality for the Integrated Software for Imagers and Spectrometers (ISIS).

Home Page: https://kalasiris.readthedocs.io

License: BSD 3-Clause "New" or "Revised" License

Makefile 3.70% Python 96.30%

kalasiris's People

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jessemapel michaelaye ladoramkershner alemran042 whigg

kalasiris's Issues

Dynamic generation of k_funcs from application XMLs

There are only a handful of apps supported via the k_funcs interface. It should be possible to generate the k_funcs programmatically similar to how the regular functions are generated.

All of the parameters are defined under <groups>, <group>, <parameter>. Any parameter with a <default>, <item> or <internalDefault> can be set as a kwarg. All of the other arguments can be positional arguments.

Link to docs in About

Hi,
this is just a very minor convenience thing, but it has become common (at least in the repos i regularly visit) that the link to docs is reachable in the upper right in the repo view.
It's an easy addition: Just click the Settings wheel in the upper right's "About" section and add the docs to the website field.
Thanks!

kalasiris.Path interface?

Could we implement an object-oriented system where the kalasiris.Path object is subclassed from
pathlib.Path, so you can say:

    import kalasiris as isis
    
    h = isis.Path('some.img')
    
    h.hi2isis().hical()
    
    print h.name
    # prints 'some.cub' which is has been run through hical. 
    # Needs some careful thought about how to deal with the actual
    # filesystem files, which may be swapped around.
    
    # inspect with 
    h.qview()
    
    # Also overload operators with isis.algebra, so that
    one = isis.Path('one.cub')
    two = isis.Path('two.cub')
    
    three = one + two
    # is the same as
    isis.algebra(from_=one, from2=two, operator='add', to=?)
    # hmm, how to specify three.name, i.e. the to= cube?  Default to one.name?

Definitely needs some thinking.

getsn returning Unkown for KaguyaTC images with ISIS4.0.0 ISISROOT

Describe the bug
getsn returns Unknown for Kaguya TC images, which is a known issue for ISIS versions 4.0.1+ even though ISISROOT and ISISDATA are set to isis4.0.0

To Reproduce
In a jupyter notebook, run

import os
os.environ['ISISROOT'] = '/path/to/anaconda3/envs/isis4.0.0'
os.environ['ISISDATA'] = '/path/to/isis_data/'

cube = '/path/to/TC1W2B0_01_01069N027E3061.cub'
isis.getsn(cube)

Returns

CompletedProcess(args=['getsn', 'from=/super/secret/path/TC1W2B0_01_01069N027E3061.cub'], returncode=0, stdout='Unknown\n', stderr='')

Expected behavior
If I hop onto the terminal, activate the same env, and run an equivalent command:

conda activate /path/to/anaconda3/envs/isis4.0.0
getsn from=/path/to/TC1W2B0_01_01069N027E3061.cub

I get the serialnumber

KAGUYA/TC1/2008-01-05T02:38:00.961757

Error logs or terminal captures
NA

Your Environment (please complete the following information):

OS: macOS
Environment information: Python Version - 3.7.8
kalasiris Version: 1.9.1

Additional context
This is not specific to the cube I have listed here, so any Kaguya TC image will work.

Make parsing stdout more robust to user IsisPreferences

Is your feature request related to a problem? Please describe.

When writing scripts it can be pretty annoying when some preferences cause additional stdout like the progress bar. This makes adds complexity to parsing stdout as PVL since you need to filter those lines.

Describe the solution you'd like

IDK what a good solution would be. In my own scripts I add an extra filter step to remove the progress bar from stdout but I feel that isn't very robust.

Another possible solution is using the installed IsisPreferences which are typically left alone. Kalasiris can load those preferences by default, or at least have the option to set the preference file somewhere in the library separate from the users. Isis has the ability to specify the preference file via the -pref flag that iirc is universal for it's apps.

Describe alternatives you've considered

ISIS can have a universal flag that only outputs PVL (or guarantees some kinda of machine parsable format) regardless of user preferences that things like kalasiris and script writers in general can use.

Additional context

Consider incorporating Isis_cmds_2_json.py

@evindunn wrote this neat XML processor to pull out extra information about the command line programs via parsing the XML files, that he talked about on astrodiscuss.

I'm not sure exactly where to put this, but I can see this being a useful little gem that someone might be able to take advantage of.

When using a build version of ISIS3, apps are not discovered correctly

kalasiris version: 0.1.0
Python version: 3.7
Operating System: OSX 13

Description

I was trying to run the tests locally and it didn't have the apps even though they were built and executable in my ISIS build.

What I Did

Checking what apps kalasiris found

(kalasiris) igswzawglt1183:kalasiris jmapel$ python
Python 3.7.2 (default, Dec 29 2018, 00:00:04) 
[Clang 4.0.1 (tags/RELEASE_401/final)] :: Anaconda, Inc. on darwin
Type "help", "copyright", "credits" or "license" for more information.
>>> import kalasiris
>>> dir(kalasiris)
['Histogram', 'Path', '__author__', '__builtins__', '__cached__', '__doc__', '__email__', '__file__', '__loader__', '__name__', '__package__', '__path__', '__spec__', '__version__', 'clem2isis', 'cubenormDialect', 'dsk2isis', 'environ', 'getkey_k', 'hi2isis_k', 'hist_k', 'isis', 'k_funcs', 'kalasiris', 'os', 'p', 'param_fmt', 'pixel2map', 'subprocess', 'sys', 'tempfile']

My ISIS build

(kalasiris) igswzawglt1183:kalasiris jmapel$ ls /Users/jmapel/ISIS3/build/bin/
algebra		   ckwriter	  cubefunc	     gllssi2isis   ifft		   map2cam	  mode		  remrx			 tabledump
amica2isis	   clem2isis	  cubeit	     gllssical	   interestcube    map2map	  mosrange	  rgb2hsv		 tgocassis2isis
amicacal	   clemhirescal   cubenorm	     gradient	   ipce		   mapgrid	  mrf2isis	  ringsautomos		 tgocassismos
apollo2isis	   clemnircal	  dawnfc2isis	     greyscale	   isis2ascii	   maplab	  mrf2pds	  ringscam2map		 tgocassisrdrgen
apollocal	   clemnirclean   dawnvir2isis	     grid	   isis2fits	   mapmos	  mroctx2isis	  ringsmappt		 tgocassisstitch
apollofindrx	   clemnirnoise   ddd2isis	     handmos	   isis2gml	   mappt	  msi2isis	  ringspt		 tgocassisunstitch
apollopaninit	   clemuvviscal   decorstretch	     hi2isis	   isis2pds	   mapsize	  mvic2isis	  rolo2isis		 thm2isis
apollopanstitcher  cnet2dem	  deltack	     hical	   isis2raw	   maptemplate	  mvstats	  rososiris2isis	 thmbasemap1
apolloremrx	   cnet2mat	  dempack	     hicalbeta	   isis2std	   maptrim	  nirs2isis	  rosvirtis2isis	 thmdriftcor
apollowarp	   cnetadd	  demprep	     hicalproc	   isiscomplete    mar102isis	  nocam2map	  rotate		 thmnoseam
appjit		   cnetbin2pvl	  deriv		     hiccdstitch   isisminer	   mar10cal	  noisefilter	  seedgrid		 thmproc
ascii2isis	   cnetcheck	  desmear	     hicolormos    isisui	   mar10clean	  noproj	  segment		 thmvisflat
automos		   cnetcombinept  desmile	     hicrop	   jigsaw	   mar10nonoise   noseam	  shade			 thmvistrim
autoregtemplate    cnetdiff	  divfilter	     hicubeit	   junocam2isis    mar10restore   ocams2isis	  shadow		 tonematch
autoseed	   cnetedit	  dsk2isis	     hicubenorm    kaguyami2isis   marci2isis	  outline	  shadowtau		 trackextract
bandnorm	   cneteditor	  dstripe	     hideal2pds    kaguyasp2ascii  marcical	  overlapstats	  sharpen		 translate
bandtrim	   cnetextract	  editlab	     hidestripe    kaguyasp2isis   marciflip	  pad		  sigmastretch		 trim
barscale	   cnethist	  edrget	     hidtmgen	   kaguyatc2isis   mask		  pca		  skymap		 trimfilter
bit2bit		   cnetmerge	  enlarge	     hiequal	   kerneldbgen	   mat2cnet	  pds2hideal	  skypt			 uncrop
blend		   cnetnewradii   equalizer	     hifringe	   kernfilter	   mdis2isis	  pds2isis	  skyrange		 vdcomp
blobdump	   cnetpvl2bin	  errors	     hifurrows	   kuwahara	   mdis2pds	  percent	  slither		 vicar2isis
butterworth	   cnetref	  explode	     highpass	   leisa2isis	   mdiscal	  phocube	  slpmap		 vik2isis
cam2cam		   cnetsplit	  fakecube	     higlob	   lineeq	   mdisddr	  phoempglobal	  smtk			 vikcal
cam2map		   cnetstats	  fft		     hijitreg	   lo2isis	   mdisedrinfo	  phoemplocal	  socetframesettings	 vikclean
camcoeffs	   cnettable	  fillgap	     hijitter	   lopdsgen	   mdisproc	  phohillier	  socetlinescankeywords  vikfixtrx
camdev		   cnetthinner	  findfeatures	     himos	   lorri2isis	   median	  photemplate	  specadd		 viknobutter
caminfo		   cnetwinnow	  findgaps	     hinoise	   lowpass	   mer2isis	  photomet	  specdivfilter		 viknonoodle
campt		   copylabel	  findimageoverlaps  hirdr2isis    lromakeflat	   messckgen	  photrim	  spechighpass		 viknopepper
camrange	   coreg	  findrx	     hirdrgen	   lronac2isis	   messspkgen	  pixel2map	  speclowpass		 viknosalt
camstats	   cosi		  fits2isis	     hisharpen	   lronac2pds	   mical	  pointreg	  specpix		 vims2isis
camtest		   crism2isis	  flip		     hist	   lronaccal	   mimap2isis	  poly		  spicefit		 vimscal
camtrim		   crop		  footprintinit      histat	   lronacecho	   minmax	  prtloganalyzer  spiceinit		 voy2isis
cathist		   cropspecial	  footprintmerge     histeq	   lronacpho	   mirror	  pvldiff	  spiceserver		 voycal
catlab		   csspckgen	  fplanemap	     histitch	   lrowac2isis	   moc2isis	  qmos		  spkwriter		 voyramp
catoriglab	   csv2table	  fx		     histmatch	   lrowac2pds	   moccal	  qnet		  stats			 warp
center		   ctxcal	  gauss		     hrsc2isis	   lrowaccal	   mocevenodd	  qtie		  std2isis		 xml
chan1m32isis	   ctxevenodd	  gaussstretch	     hsv2rgb	   lrowacpho	   mocgap	  qview		  stretch
circle		   cubeatt	  getkey	     hyb1pds4gen   m3loc2net	   mocnoise50	  ratio		  sumspice
ciss2isis	   cubeavg	  getsn		     hyb2onc2isis  makecube	   mocproc	  raw2isis	  svfilter
cisscal		   cubediff	  gllnims2isis	     hyb2onccal    makeflat	   mocuncompress  reduce	  table2cube

The xml directory

(kalasiris) igswzawglt1183:kalasiris jmapel$ ls /Users/jmapel/ISIS3/build/bin/xml/*.xml
/Users/jmapel/ISIS3/build/bin/xml/algebra.xml		 /Users/jmapel/ISIS3/build/bin/xml/kerneldbgen.xml
/Users/jmapel/ISIS3/build/bin/xml/amica2isis.xml	 /Users/jmapel/ISIS3/build/bin/xml/kernfilter.xml
/Users/jmapel/ISIS3/build/bin/xml/amicacal.xml		 /Users/jmapel/ISIS3/build/bin/xml/kuwahara.xml
/Users/jmapel/ISIS3/build/bin/xml/apollo2isis.xml	 /Users/jmapel/ISIS3/build/bin/xml/leisa2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/apollocal.xml		 /Users/jmapel/ISIS3/build/bin/xml/lineeq.xml
/Users/jmapel/ISIS3/build/bin/xml/apollofindrx.xml	 /Users/jmapel/ISIS3/build/bin/xml/lo2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/apollopaninit.xml	 /Users/jmapel/ISIS3/build/bin/xml/lopdsgen.xml
/Users/jmapel/ISIS3/build/bin/xml/apollopanstitcher.xml  /Users/jmapel/ISIS3/build/bin/xml/lorri2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/apolloremrx.xml	 /Users/jmapel/ISIS3/build/bin/xml/lowpass.xml
/Users/jmapel/ISIS3/build/bin/xml/apollowarp.xml	 /Users/jmapel/ISIS3/build/bin/xml/lromakeflat.xml
/Users/jmapel/ISIS3/build/bin/xml/appjit.xml		 /Users/jmapel/ISIS3/build/bin/xml/lronac2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/ascii2isis.xml	 /Users/jmapel/ISIS3/build/bin/xml/lronac2pds.xml
/Users/jmapel/ISIS3/build/bin/xml/automos.xml		 /Users/jmapel/ISIS3/build/bin/xml/lronaccal.xml
/Users/jmapel/ISIS3/build/bin/xml/autoregtemplate.xml	 /Users/jmapel/ISIS3/build/bin/xml/lronacecho.xml
/Users/jmapel/ISIS3/build/bin/xml/autoseed.xml		 /Users/jmapel/ISIS3/build/bin/xml/lronacpho.xml
/Users/jmapel/ISIS3/build/bin/xml/bandnorm.xml		 /Users/jmapel/ISIS3/build/bin/xml/lrowac2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/bandtrim.xml		 /Users/jmapel/ISIS3/build/bin/xml/lrowac2pds.xml
/Users/jmapel/ISIS3/build/bin/xml/barscale.xml		 /Users/jmapel/ISIS3/build/bin/xml/lrowaccal.xml
/Users/jmapel/ISIS3/build/bin/xml/bit2bit.xml		 /Users/jmapel/ISIS3/build/bin/xml/lrowacpho.xml
/Users/jmapel/ISIS3/build/bin/xml/blend.xml		 /Users/jmapel/ISIS3/build/bin/xml/m3loc2net.xml
/Users/jmapel/ISIS3/build/bin/xml/blobdump.xml		 /Users/jmapel/ISIS3/build/bin/xml/makecube.xml
/Users/jmapel/ISIS3/build/bin/xml/butterworth.xml	 /Users/jmapel/ISIS3/build/bin/xml/makeflat.xml
/Users/jmapel/ISIS3/build/bin/xml/cam2cam.xml		 /Users/jmapel/ISIS3/build/bin/xml/map2cam.xml
/Users/jmapel/ISIS3/build/bin/xml/cam2map.xml		 /Users/jmapel/ISIS3/build/bin/xml/map2map.xml
/Users/jmapel/ISIS3/build/bin/xml/camcoeffs.xml		 /Users/jmapel/ISIS3/build/bin/xml/mapgrid.xml
/Users/jmapel/ISIS3/build/bin/xml/camdev.xml		 /Users/jmapel/ISIS3/build/bin/xml/maplab.xml
/Users/jmapel/ISIS3/build/bin/xml/caminfo.xml		 /Users/jmapel/ISIS3/build/bin/xml/mapmos.xml
/Users/jmapel/ISIS3/build/bin/xml/campt.xml		 /Users/jmapel/ISIS3/build/bin/xml/mappt.xml
/Users/jmapel/ISIS3/build/bin/xml/camrange.xml		 /Users/jmapel/ISIS3/build/bin/xml/mapsize.xml
/Users/jmapel/ISIS3/build/bin/xml/camstats.xml		 /Users/jmapel/ISIS3/build/bin/xml/maptemplate.xml
/Users/jmapel/ISIS3/build/bin/xml/camtest.xml		 /Users/jmapel/ISIS3/build/bin/xml/maptrim.xml
/Users/jmapel/ISIS3/build/bin/xml/camtrim.xml		 /Users/jmapel/ISIS3/build/bin/xml/mar102isis.xml
/Users/jmapel/ISIS3/build/bin/xml/cathist.xml		 /Users/jmapel/ISIS3/build/bin/xml/mar10cal.xml
/Users/jmapel/ISIS3/build/bin/xml/catlab.xml		 /Users/jmapel/ISIS3/build/bin/xml/mar10clean.xml
/Users/jmapel/ISIS3/build/bin/xml/catoriglab.xml	 /Users/jmapel/ISIS3/build/bin/xml/mar10nonoise.xml
/Users/jmapel/ISIS3/build/bin/xml/center.xml		 /Users/jmapel/ISIS3/build/bin/xml/mar10restore.xml
/Users/jmapel/ISIS3/build/bin/xml/chan1m32isis.xml	 /Users/jmapel/ISIS3/build/bin/xml/marci2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/circle.xml		 /Users/jmapel/ISIS3/build/bin/xml/marcical.xml
/Users/jmapel/ISIS3/build/bin/xml/ciss2isis.xml		 /Users/jmapel/ISIS3/build/bin/xml/marciflip.xml
/Users/jmapel/ISIS3/build/bin/xml/cisscal.xml		 /Users/jmapel/ISIS3/build/bin/xml/mask.xml
/Users/jmapel/ISIS3/build/bin/xml/ckwriter.xml		 /Users/jmapel/ISIS3/build/bin/xml/mat2cnet.xml
/Users/jmapel/ISIS3/build/bin/xml/clem2isis.xml		 /Users/jmapel/ISIS3/build/bin/xml/mdis2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/clemhirescal.xml	 /Users/jmapel/ISIS3/build/bin/xml/mdis2pds.xml
/Users/jmapel/ISIS3/build/bin/xml/clemnircal.xml	 /Users/jmapel/ISIS3/build/bin/xml/mdiscal.xml
/Users/jmapel/ISIS3/build/bin/xml/clemnirclean.xml	 /Users/jmapel/ISIS3/build/bin/xml/mdisddr.xml
/Users/jmapel/ISIS3/build/bin/xml/clemnirnoise.xml	 /Users/jmapel/ISIS3/build/bin/xml/mdisedrinfo.xml
/Users/jmapel/ISIS3/build/bin/xml/clemuvviscal.xml	 /Users/jmapel/ISIS3/build/bin/xml/mdisproc.xml
/Users/jmapel/ISIS3/build/bin/xml/cnet2dem.xml		 /Users/jmapel/ISIS3/build/bin/xml/median.xml
/Users/jmapel/ISIS3/build/bin/xml/cnet2mat.xml		 /Users/jmapel/ISIS3/build/bin/xml/mer2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/cnetadd.xml		 /Users/jmapel/ISIS3/build/bin/xml/messckgen.xml
/Users/jmapel/ISIS3/build/bin/xml/cnetbin2pvl.xml	 /Users/jmapel/ISIS3/build/bin/xml/messspkgen.xml
/Users/jmapel/ISIS3/build/bin/xml/cnetcheck.xml		 /Users/jmapel/ISIS3/build/bin/xml/mical.xml
/Users/jmapel/ISIS3/build/bin/xml/cnetcombinept.xml	 /Users/jmapel/ISIS3/build/bin/xml/mimap2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/cnetdiff.xml		 /Users/jmapel/ISIS3/build/bin/xml/minmax.xml
/Users/jmapel/ISIS3/build/bin/xml/cnetedit.xml		 /Users/jmapel/ISIS3/build/bin/xml/mirror.xml
/Users/jmapel/ISIS3/build/bin/xml/cneteditor.xml	 /Users/jmapel/ISIS3/build/bin/xml/moc2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/cnetextract.xml	 /Users/jmapel/ISIS3/build/bin/xml/moccal.xml
/Users/jmapel/ISIS3/build/bin/xml/cnethist.xml		 /Users/jmapel/ISIS3/build/bin/xml/mocevenodd.xml
/Users/jmapel/ISIS3/build/bin/xml/cnetmerge.xml		 /Users/jmapel/ISIS3/build/bin/xml/mocgap.xml
/Users/jmapel/ISIS3/build/bin/xml/cnetnewradii.xml	 /Users/jmapel/ISIS3/build/bin/xml/mocnoise50.xml
/Users/jmapel/ISIS3/build/bin/xml/cnetpvl2bin.xml	 /Users/jmapel/ISIS3/build/bin/xml/mocproc.xml
/Users/jmapel/ISIS3/build/bin/xml/cnetref.xml		 /Users/jmapel/ISIS3/build/bin/xml/mocuncompress.xml
/Users/jmapel/ISIS3/build/bin/xml/cnetsplit.xml		 /Users/jmapel/ISIS3/build/bin/xml/mode.xml
/Users/jmapel/ISIS3/build/bin/xml/cnetstats.xml		 /Users/jmapel/ISIS3/build/bin/xml/mosrange.xml
/Users/jmapel/ISIS3/build/bin/xml/cnettable.xml		 /Users/jmapel/ISIS3/build/bin/xml/mrf2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/cnetthinner.xml	 /Users/jmapel/ISIS3/build/bin/xml/mrf2pds.xml
/Users/jmapel/ISIS3/build/bin/xml/cnetwinnow.xml	 /Users/jmapel/ISIS3/build/bin/xml/mroctx2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/copylabel.xml		 /Users/jmapel/ISIS3/build/bin/xml/msi2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/coreg.xml		 /Users/jmapel/ISIS3/build/bin/xml/mvic2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/cosi.xml		 /Users/jmapel/ISIS3/build/bin/xml/mvstats.xml
/Users/jmapel/ISIS3/build/bin/xml/crism2isis.xml	 /Users/jmapel/ISIS3/build/bin/xml/nirs2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/crop.xml		 /Users/jmapel/ISIS3/build/bin/xml/nocam2map.xml
/Users/jmapel/ISIS3/build/bin/xml/cropspecial.xml	 /Users/jmapel/ISIS3/build/bin/xml/noisefilter.xml
/Users/jmapel/ISIS3/build/bin/xml/csspckgen.xml		 /Users/jmapel/ISIS3/build/bin/xml/noproj.xml
/Users/jmapel/ISIS3/build/bin/xml/csv2table.xml		 /Users/jmapel/ISIS3/build/bin/xml/noseam.xml
/Users/jmapel/ISIS3/build/bin/xml/ctxcal.xml		 /Users/jmapel/ISIS3/build/bin/xml/ocams2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/ctxevenodd.xml	 /Users/jmapel/ISIS3/build/bin/xml/outline.xml
/Users/jmapel/ISIS3/build/bin/xml/cubeatt.xml		 /Users/jmapel/ISIS3/build/bin/xml/overlapstats.xml
/Users/jmapel/ISIS3/build/bin/xml/cubeavg.xml		 /Users/jmapel/ISIS3/build/bin/xml/pad.xml
/Users/jmapel/ISIS3/build/bin/xml/cubediff.xml		 /Users/jmapel/ISIS3/build/bin/xml/pca.xml
/Users/jmapel/ISIS3/build/bin/xml/cubefunc.xml		 /Users/jmapel/ISIS3/build/bin/xml/pds2hideal.xml
/Users/jmapel/ISIS3/build/bin/xml/cubeit.xml		 /Users/jmapel/ISIS3/build/bin/xml/pds2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/cubenorm.xml		 /Users/jmapel/ISIS3/build/bin/xml/percent.xml
/Users/jmapel/ISIS3/build/bin/xml/dawnfc2isis.xml	 /Users/jmapel/ISIS3/build/bin/xml/phocube.xml
/Users/jmapel/ISIS3/build/bin/xml/dawnvir2isis.xml	 /Users/jmapel/ISIS3/build/bin/xml/phoempglobal.xml
/Users/jmapel/ISIS3/build/bin/xml/ddd2isis.xml		 /Users/jmapel/ISIS3/build/bin/xml/phoemplocal.xml
/Users/jmapel/ISIS3/build/bin/xml/decorstretch.xml	 /Users/jmapel/ISIS3/build/bin/xml/phohillier.xml
/Users/jmapel/ISIS3/build/bin/xml/deltack.xml		 /Users/jmapel/ISIS3/build/bin/xml/photemplate.xml
/Users/jmapel/ISIS3/build/bin/xml/dempack.xml		 /Users/jmapel/ISIS3/build/bin/xml/photomet.xml
/Users/jmapel/ISIS3/build/bin/xml/demprep.xml		 /Users/jmapel/ISIS3/build/bin/xml/photrim.xml
/Users/jmapel/ISIS3/build/bin/xml/deriv.xml		 /Users/jmapel/ISIS3/build/bin/xml/pixel2map.xml
/Users/jmapel/ISIS3/build/bin/xml/desmear.xml		 /Users/jmapel/ISIS3/build/bin/xml/pointreg.xml
/Users/jmapel/ISIS3/build/bin/xml/desmile.xml		 /Users/jmapel/ISIS3/build/bin/xml/poly.xml
/Users/jmapel/ISIS3/build/bin/xml/divfilter.xml		 /Users/jmapel/ISIS3/build/bin/xml/prtloganalyzer.xml
/Users/jmapel/ISIS3/build/bin/xml/dsk2isis.xml		 /Users/jmapel/ISIS3/build/bin/xml/pvldiff.xml
/Users/jmapel/ISIS3/build/bin/xml/dstripe.xml		 /Users/jmapel/ISIS3/build/bin/xml/qmos.xml
/Users/jmapel/ISIS3/build/bin/xml/editlab.xml		 /Users/jmapel/ISIS3/build/bin/xml/qnet.xml
/Users/jmapel/ISIS3/build/bin/xml/edrget.xml		 /Users/jmapel/ISIS3/build/bin/xml/qtie.xml
/Users/jmapel/ISIS3/build/bin/xml/enlarge.xml		 /Users/jmapel/ISIS3/build/bin/xml/qview.xml
/Users/jmapel/ISIS3/build/bin/xml/equalizer.xml		 /Users/jmapel/ISIS3/build/bin/xml/ratio.xml
/Users/jmapel/ISIS3/build/bin/xml/errors.xml		 /Users/jmapel/ISIS3/build/bin/xml/raw2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/explode.xml		 /Users/jmapel/ISIS3/build/bin/xml/reduce.xml
/Users/jmapel/ISIS3/build/bin/xml/fakecube.xml		 /Users/jmapel/ISIS3/build/bin/xml/remrx.xml
/Users/jmapel/ISIS3/build/bin/xml/fft.xml		 /Users/jmapel/ISIS3/build/bin/xml/rgb2hsv.xml
/Users/jmapel/ISIS3/build/bin/xml/fillgap.xml		 /Users/jmapel/ISIS3/build/bin/xml/ringsautomos.xml
/Users/jmapel/ISIS3/build/bin/xml/findfeatures.xml	 /Users/jmapel/ISIS3/build/bin/xml/ringscam2map.xml
/Users/jmapel/ISIS3/build/bin/xml/findgaps.xml		 /Users/jmapel/ISIS3/build/bin/xml/ringsmappt.xml
/Users/jmapel/ISIS3/build/bin/xml/findimageoverlaps.xml  /Users/jmapel/ISIS3/build/bin/xml/ringspt.xml
/Users/jmapel/ISIS3/build/bin/xml/findrx.xml		 /Users/jmapel/ISIS3/build/bin/xml/rolo2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/fits2isis.xml		 /Users/jmapel/ISIS3/build/bin/xml/rososiris2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/flip.xml		 /Users/jmapel/ISIS3/build/bin/xml/rosvirtis2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/footprintinit.xml	 /Users/jmapel/ISIS3/build/bin/xml/rotate.xml
/Users/jmapel/ISIS3/build/bin/xml/footprintmerge.xml	 /Users/jmapel/ISIS3/build/bin/xml/seedgrid.xml
/Users/jmapel/ISIS3/build/bin/xml/fplanemap.xml		 /Users/jmapel/ISIS3/build/bin/xml/segment.xml
/Users/jmapel/ISIS3/build/bin/xml/fx.xml		 /Users/jmapel/ISIS3/build/bin/xml/shade.xml
/Users/jmapel/ISIS3/build/bin/xml/gauss.xml		 /Users/jmapel/ISIS3/build/bin/xml/shadow.xml
/Users/jmapel/ISIS3/build/bin/xml/gaussstretch.xml	 /Users/jmapel/ISIS3/build/bin/xml/shadowtau.xml
/Users/jmapel/ISIS3/build/bin/xml/getkey.xml		 /Users/jmapel/ISIS3/build/bin/xml/sharpen.xml
/Users/jmapel/ISIS3/build/bin/xml/getsn.xml		 /Users/jmapel/ISIS3/build/bin/xml/sigmastretch.xml
/Users/jmapel/ISIS3/build/bin/xml/gllnims2isis.xml	 /Users/jmapel/ISIS3/build/bin/xml/skymap.xml
/Users/jmapel/ISIS3/build/bin/xml/gllssi2isis.xml	 /Users/jmapel/ISIS3/build/bin/xml/skypt.xml
/Users/jmapel/ISIS3/build/bin/xml/gllssical.xml		 /Users/jmapel/ISIS3/build/bin/xml/skyrange.xml
/Users/jmapel/ISIS3/build/bin/xml/gradient.xml		 /Users/jmapel/ISIS3/build/bin/xml/slither.xml
/Users/jmapel/ISIS3/build/bin/xml/greyscale.xml		 /Users/jmapel/ISIS3/build/bin/xml/slpmap.xml
/Users/jmapel/ISIS3/build/bin/xml/grid.xml		 /Users/jmapel/ISIS3/build/bin/xml/smtk.xml
/Users/jmapel/ISIS3/build/bin/xml/handmos.xml		 /Users/jmapel/ISIS3/build/bin/xml/socetframesettings.xml
/Users/jmapel/ISIS3/build/bin/xml/hi2isis.xml		 /Users/jmapel/ISIS3/build/bin/xml/socetlinescankeywords.xml
/Users/jmapel/ISIS3/build/bin/xml/hical.xml		 /Users/jmapel/ISIS3/build/bin/xml/specadd.xml
/Users/jmapel/ISIS3/build/bin/xml/hicalbeta.xml		 /Users/jmapel/ISIS3/build/bin/xml/specdivfilter.xml
/Users/jmapel/ISIS3/build/bin/xml/hicalproc.xml		 /Users/jmapel/ISIS3/build/bin/xml/spechighpass.xml
/Users/jmapel/ISIS3/build/bin/xml/hiccdstitch.xml	 /Users/jmapel/ISIS3/build/bin/xml/speclowpass.xml
/Users/jmapel/ISIS3/build/bin/xml/hicolormos.xml	 /Users/jmapel/ISIS3/build/bin/xml/specpix.xml
/Users/jmapel/ISIS3/build/bin/xml/hicrop.xml		 /Users/jmapel/ISIS3/build/bin/xml/spicefit.xml
/Users/jmapel/ISIS3/build/bin/xml/hicubeit.xml		 /Users/jmapel/ISIS3/build/bin/xml/spiceinit.xml
/Users/jmapel/ISIS3/build/bin/xml/hicubenorm.xml	 /Users/jmapel/ISIS3/build/bin/xml/spiceserver.xml
/Users/jmapel/ISIS3/build/bin/xml/hideal2pds.xml	 /Users/jmapel/ISIS3/build/bin/xml/spkwriter.xml
/Users/jmapel/ISIS3/build/bin/xml/hidestripe.xml	 /Users/jmapel/ISIS3/build/bin/xml/stats.xml
/Users/jmapel/ISIS3/build/bin/xml/hidtmgen.xml		 /Users/jmapel/ISIS3/build/bin/xml/std2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/hiequal.xml		 /Users/jmapel/ISIS3/build/bin/xml/stretch.xml
/Users/jmapel/ISIS3/build/bin/xml/hifringe.xml		 /Users/jmapel/ISIS3/build/bin/xml/sumspice.xml
/Users/jmapel/ISIS3/build/bin/xml/hifurrows.xml		 /Users/jmapel/ISIS3/build/bin/xml/svfilter.xml
/Users/jmapel/ISIS3/build/bin/xml/highpass.xml		 /Users/jmapel/ISIS3/build/bin/xml/table2cube.xml
/Users/jmapel/ISIS3/build/bin/xml/higlob.xml		 /Users/jmapel/ISIS3/build/bin/xml/tabledump.xml
/Users/jmapel/ISIS3/build/bin/xml/hijitreg.xml		 /Users/jmapel/ISIS3/build/bin/xml/tgocassis2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/hijitter.xml		 /Users/jmapel/ISIS3/build/bin/xml/tgocassismos.xml
/Users/jmapel/ISIS3/build/bin/xml/himos.xml		 /Users/jmapel/ISIS3/build/bin/xml/tgocassisrdrgen.xml
/Users/jmapel/ISIS3/build/bin/xml/hinoise.xml		 /Users/jmapel/ISIS3/build/bin/xml/tgocassisstitch.xml
/Users/jmapel/ISIS3/build/bin/xml/hirdr2isis.xml	 /Users/jmapel/ISIS3/build/bin/xml/tgocassisunstitch.xml
/Users/jmapel/ISIS3/build/bin/xml/hirdrgen.xml		 /Users/jmapel/ISIS3/build/bin/xml/thm2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/hisharpen.xml		 /Users/jmapel/ISIS3/build/bin/xml/thmbasemap1.xml
/Users/jmapel/ISIS3/build/bin/xml/hist.xml		 /Users/jmapel/ISIS3/build/bin/xml/thmdriftcor.xml
/Users/jmapel/ISIS3/build/bin/xml/histat.xml		 /Users/jmapel/ISIS3/build/bin/xml/thmnoseam.xml
/Users/jmapel/ISIS3/build/bin/xml/histeq.xml		 /Users/jmapel/ISIS3/build/bin/xml/thmproc.xml
/Users/jmapel/ISIS3/build/bin/xml/histitch.xml		 /Users/jmapel/ISIS3/build/bin/xml/thmvisflat.xml
/Users/jmapel/ISIS3/build/bin/xml/histmatch.xml		 /Users/jmapel/ISIS3/build/bin/xml/thmvistrim.xml
/Users/jmapel/ISIS3/build/bin/xml/hrsc2isis.xml		 /Users/jmapel/ISIS3/build/bin/xml/tonematch.xml
/Users/jmapel/ISIS3/build/bin/xml/hsv2rgb.xml		 /Users/jmapel/ISIS3/build/bin/xml/trackextract.xml
/Users/jmapel/ISIS3/build/bin/xml/hyb1pds4gen.xml	 /Users/jmapel/ISIS3/build/bin/xml/translate.xml
/Users/jmapel/ISIS3/build/bin/xml/hyb2onc2isis.xml	 /Users/jmapel/ISIS3/build/bin/xml/trim.xml
/Users/jmapel/ISIS3/build/bin/xml/hyb2onccal.xml	 /Users/jmapel/ISIS3/build/bin/xml/trimfilter.xml
/Users/jmapel/ISIS3/build/bin/xml/ifft.xml		 /Users/jmapel/ISIS3/build/bin/xml/uncrop.xml
/Users/jmapel/ISIS3/build/bin/xml/interestcube.xml	 /Users/jmapel/ISIS3/build/bin/xml/vdcomp.xml
/Users/jmapel/ISIS3/build/bin/xml/ipce.xml		 /Users/jmapel/ISIS3/build/bin/xml/vicar2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/isis2ascii.xml	 /Users/jmapel/ISIS3/build/bin/xml/vik2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/isis2fits.xml		 /Users/jmapel/ISIS3/build/bin/xml/vikcal.xml
/Users/jmapel/ISIS3/build/bin/xml/isis2gml.xml		 /Users/jmapel/ISIS3/build/bin/xml/vikclean.xml
/Users/jmapel/ISIS3/build/bin/xml/isis2pds.xml		 /Users/jmapel/ISIS3/build/bin/xml/vikfixtrx.xml
/Users/jmapel/ISIS3/build/bin/xml/isis2raw.xml		 /Users/jmapel/ISIS3/build/bin/xml/viknobutter.xml
/Users/jmapel/ISIS3/build/bin/xml/isis2std.xml		 /Users/jmapel/ISIS3/build/bin/xml/viknonoodle.xml
/Users/jmapel/ISIS3/build/bin/xml/isiscomplete.xml	 /Users/jmapel/ISIS3/build/bin/xml/viknopepper.xml
/Users/jmapel/ISIS3/build/bin/xml/isisminer.xml		 /Users/jmapel/ISIS3/build/bin/xml/viknosalt.xml
/Users/jmapel/ISIS3/build/bin/xml/isisui.xml		 /Users/jmapel/ISIS3/build/bin/xml/vims2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/jigsaw.xml		 /Users/jmapel/ISIS3/build/bin/xml/vimscal.xml
/Users/jmapel/ISIS3/build/bin/xml/junocam2isis.xml	 /Users/jmapel/ISIS3/build/bin/xml/voy2isis.xml
/Users/jmapel/ISIS3/build/bin/xml/kaguyami2isis.xml	 /Users/jmapel/ISIS3/build/bin/xml/voycal.xml
/Users/jmapel/ISIS3/build/bin/xml/kaguyasp2ascii.xml	 /Users/jmapel/ISIS3/build/bin/xml/voyramp.xml
/Users/jmapel/ISIS3/build/bin/xml/kaguyasp2isis.xml	 /Users/jmapel/ISIS3/build/bin/xml/warp.xml
/Users/jmapel/ISIS3/build/bin/xml/kaguyatc2isis.xml

Update to new ISISDATA variables

Describe the bug

ISIS has been updated to have a version dependent name for the env variable that points to the ISIS data location:

https://github.com/USGS-Astrogeology/ISIS3#versions-of-the-isis-data-area

To Reproduce

install current ISIS (4.2)
from kalasiris import cam2map

---------------------------------------------------------------------------
KeyError                                  Traceback (most recent call last)
<ipython-input-9-a911b11ef4d5> in <module>
----> 1 from kalasiris import cam2map

~/miniconda3/envs/py37/lib/python3.7/site-packages/kalasiris/__init__.py in <module>
      7 __version__ = "1.8.0"
      8 
----> 9 from .kalasiris import *  # noqa: F401,F403
     10 from .k_funcs import *  # noqa: F401,F403
     11 from .Histogram import Histogram  # noqa: F401

~/miniconda3/envs/py37/lib/python3.7/site-packages/kalasiris/kalasiris.py in <module>
     33 # before any calls to ISIS programs.
     34 _isisroot = os.environ["ISISROOT"]
---> 35 _isis3data = os.environ["ISIS3DATA"]
     36 environ = {
     37     "ISISROOT": _isisroot,

~/miniconda3/envs/py37/lib/python3.7/os.py in __getitem__(self, key)
    679         except KeyError:
    680             # raise KeyError with the original key value
--> 681             raise KeyError(key) from None
    682         return self.decodevalue(value)
    683 

KeyError: 'ISIS3DATA'

Expected behavior
A clear and concise description of what you expected to happen.

Not sure, but I think it should now also check for ISISDATA ?

Make it easier to find functions

The kalasiris package has lots of little functions that provide a more Pythonic handle for some ISIS activities (e.g. the Histogram class, fromlist, etc.), and it is difficult to find them in the documentation.

If you visit https://kalasiris.readthedocs.io/en/latest/modules.html you see a compact table-of-contents-like listing. However, if you click on any one of those to dive into the docs (e.g. https://kalasiris.readthedocs.io/en/latest/kalasiris.html), you loose that table-of-contents.

Describe the solution you'd like
Is there a way to get that table-of-contents in the left menu when you're on that page?

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