Shorten or expand neuroglancer URLs

flywire_shortenurl makes short URLs from long URLs or ngscene objects that you may have constructed in R.

flywire_expandurl expands shortened URLs into a full neuroglancer JSON scene specification. If the link references a specific version of neuroglancer on a specific host URL then that will be used as the base of the expanded URL. This is nearly always the case, but should this ever not be so, then if the active segmentation (choose_segmentation) is a flywire segmentation then that is used to define the initial part of the output URL. Failing this, the flywire31 segmentation is used.

flywire_expandurl will also expand tinyurl.com URLs as well as those referencing a json fragment on a google cloud bucket (such as the flyem link shortener). If a tinyurl.com URL maps to a short URL referencing a json fragment, then they will successively be expanded unless follow=FALSE.

Finally, if the URL is actually already expanded, then this will be returned unmodified. This is a change in behaviour as of May 2024 (previously an error was thrown).

Usage

flywire_shortenurl(x, include_base = TRUE, baseurl = NULL, cache = TRUE, ...)

flywire_expandurl(x, json.only = FALSE, cache = TRUE, follow = TRUE, ...)

Arguments

x

One or more neuroglancer URLs or (for flywire_expandurl) ngscene parsed scene description.

include_base

Whether to return a full URL that will open a neuroglancer session (the default) or only the component that defines the scene (which would display JSON in your browser).

baseurl

Optional URL defining the neuroglancer browser to use with shortened URLs.

cache

Whether to cache any calls to the flywire state server shortening or expanding URLs. Default is TRUE. NB this cache is only active for the current session.

...

Additional arguments passed to pbsapply (when multiple URLs to process) and then to ngl_encode_url (when generating a short URL for an ngscene list object) or to flywire_fetch when using flywire_expandurl.

json.only

Only return the JSON fragment rather than the neuroglancer URL. Defaults to FALSE.

follow

Whether to follow short URLs that specify other short URLs (see details). Defaults to TRUE.

Value

A character vector containing one or more URLs.

Examples

if (FALSE) { # \dontrun{
sc=ngl_blank_scene()
short=flywire_shortenurl(sc)
long=flywire_expandurl(short)
} # }
# \donttest{
flywire_expandurl("https://globalv1.flywire-daf.com/nglstate/5747205470158848")
#> [1] "https://globalv1.flywire-daf.com/#!%7B%22layers%22%3A%5B%7B%22source%22%3A%22precomputed%3A%2F%2Fgs%3A%2F%2Fmicrons-seunglab%2Fdrosophila_v0%2Falignment%2Fimage_rechunked%22%2C%22type%22%3A%22image%22%2C%22blend%22%3A%22default%22%2C%22shaderControls%22%3A%7B%7D%2C%22name%22%3A%22Production-image%22%7D%2C%7B%22tab%22%3A%22graph%22%2C%22source%22%3A%22graphene%3A%2F%2Fhttps%3A%2F%2Fprodv1.flywire-daf.com%2Fsegmentation%2F1.0%2Ffly_v31%22%2C%22type%22%3A%22segmentation_with_graph%22%2C%22selectedAlpha%22%3A0.62%2C%22colorSeed%22%3A1358768360%2C%22segments%22%3A%5B%22720575940619527173%22%2C%22720575940628130268%22%2C%22720575940630484179%22%5D%2C%22hiddenSegments%22%3A%5B%22720575940634222734%22%2C%22720575940636364870%22%5D%2C%22skeletonRendering%22%3A%7B%22mode2d%22%3A%22lines_and_points%22%2C%22mode3d%22%3A%22lines%22%7D%2C%22graphOperationMarker%22%3A%5B%7B%22annotations%22%3A%5B%5D%2C%22tags%22%3A%5B%5D%7D%2C%7B%22annotations%22%3A%5B%5D%2C%22tags%22%3A%5B%5D%7D%5D%2C%22pathFinder%22%3A%7B%22color%22%3A%22%23ffff00%22%2C%22pathObject%22%3A%7B%22annotationPath%22%3A%7B%22annotations%22%3A%5B%5D%2C%22tags%22%3A%5B%5D%7D%2C%22hasPath%22%3Afalse%7D%7D%2C%22name%22%3A%22Production-segmentation_with_graph%22%7D%5D%2C%22navigation%22%3A%7B%22pose%22%3A%7B%22position%22%3A%7B%22voxelSize%22%3A%5B4%2C4%2C40%5D%2C%22voxelCoordinates%22%3A%5B115198%2C55453%2C1537%5D%7D%7D%2C%22zoomFactor%22%3A4.145162302892657%7D%2C%22perspectiveOrientation%22%3A%5B-0.22566604614257812%2C-0.034010399132966995%2C-0.07959923148155212%2C0.97035151720047%5D%2C%22perspectiveZoom%22%3A4888.123757966904%2C%22showSlices%22%3Afalse%2C%22jsonStateServer%22%3A%22https%3A%2F%2Fglobalv1.flywire-daf.com%2Fnglstate%2Fpost%22%2C%22selectedLayer%22%3A%7B%22layer%22%3A%22Production-segmentation_with_graph%22%2C%22visible%22%3Atrue%7D%2C%22layout%22%3A%22xy-3d%22%7D"
flywire_expandurl("https://tinyurl.com/rmr58jpn")
#> [1] "https://neuroglancer-demo.appspot.com/#!%7B%22dimensions%22:%7B%22x%22:%5B1.6e-8%2C%22m%22%5D%2C%22y%22:%5B1.6e-8%2C%22m%22%5D%2C%22z%22:%5B4e-8%2C%22m%22%5D%7D%2C%22position%22:%5B35783.34765625%2C10234.412109375%2C3672.360107421875%5D%2C%22crossSectionScale%22:1.2071435133745394%2C%22projectionOrientation%22:%5B0.3210762143135071%2C-0.019618114456534386%2C-0.03835516422986984%2C-0.9460729956626892%5D%2C%22projectionScale%22:17861.319479912258%2C%22layers%22:%5B%7B%22type%22:%22image%22%2C%22source%22:%22precomputed://gs://flywire_em/aligned/v1%22%2C%22tab%22:%22source%22%2C%22name%22:%22v1%22%7D%2C%7B%22type%22:%22segmentation%22%2C%22source%22:%22graphene://middleauth+https://prod.flywire-daf.com/segmentation/1.0/fly_v31%22%2C%22tab%22:%22segments%22%2C%22segments%22:%5B%22720575940626927366%22%2C%22720575940632115923%22%5D%2C%22segmentQuery%22:%22720575940626927366%20720575940632115923%22%2C%22colorSeed%22:3185436646%2C%22name%22:%22fly_v31%22%7D%2C%7B%22type%22:%22segmentation%22%2C%22source%22:%7B%22url%22:%22graphene://middleauth+https://prod.flywire-daf.com/segmentation/1.0/fly_v31%22%2C%22transform%22:%7B%22matrix%22:%5B%5B-0.9923%2C-0.0451%2C0.0652%2C65672.5875%5D%2C%5B-0.0765%2C0.9961%2C0.0048%2C2454.31625%5D%2C%5B0.167%2C0.0059%2C0.9915%2C-2227.49425%5D%5D%2C%22outputDimensions%22:%7B%22x%22:%5B1.6e-8%2C%22m%22%5D%2C%22y%22:%5B1.6e-8%2C%22m%22%5D%2C%22z%22:%5B4e-8%2C%22m%22%5D%7D%7D%2C%22subsources%22:%7B%22default%22:true%2C%22graph%22:true%2C%22bounds%22:true%2C%22mesh%22:true%7D%2C%22enableDefaultSubsources%22:false%7D%2C%22tab%22:%22source%22%2C%22segments%22:%5B%22720575940626927366%22%5D%2C%22segmentQuery%22:%22720575940626927366%20720575940632115923%22%2C%22colorSeed%22:626504786%2C%22name%22:%22fly_v31_mirror%22%2C%22archived%22:true%7D%2C%7B%22type%22:%22segmentation%22%2C%22source%22:%22precomputed://https://spine.itanna.io/files/eric/jfrc_mesh_test%22%2C%22tab%22:%22source%22%2C%22selectedAlpha%22:0.55%2C%22objectAlpha%22:0.09%2C%22segments%22:%5B%221%22%5D%2C%22colorSeed%22:2225652644%2C%22segmentColors%22:%7B%221%22:%22#cacdd8%22%7D%2C%22name%22:%22jfrc_mesh_test1%22%2C%22visible%22:false%7D%5D%2C%22showAxisLines%22:false%2C%22selectedLayer%22:%7B%22size%22:646%2C%22visible%22:true%2C%22layer%22:%22fly_v31_mirror%22%7D%2C%22layout%22:%7B%22type%22:%223d%22%2C%22orthographicProjection%22:true%7D%2C%22selection%22:%7B%22size%22:646%2C%22visible%22:false%7D%2C%22layerListPanel%22:%7B%22visible%22:true%7D%7D"
# }
if (FALSE) { # \dontrun{
flywire_expandurl("https://tinyurl.com/flywirehb2")
} # }