HabitatSampler merge requestshttps://git.gfz-potsdam.de/habitat-sampler/HabitatSampler/-/merge_requests2022-05-12T14:24:50+02:00https://git.gfz-potsdam.de/habitat-sampler/HabitatSampler/-/merge_requests/39Remove version restriction2022-05-12T14:24:50+02:00Romulo Pereira GoncalvesRemove version restrictionUnit and Integration testsRomulo Pereira GoncalvesRomulo Pereira Goncalveshttps://git.gfz-potsdam.de/habitat-sampler/HabitatSampler/-/merge_requests/38Issue#392022-05-02T11:23:43+02:00Romulo Pereira GoncalvesIssue#39Closes issue #39Closes issue #39Unit and Integration testsRomulo Pereira GoncalvesRomulo Pereira Goncalveshttps://git.gfz-potsdam.de/habitat-sampler/HabitatSampler/-/merge_requests/22Check if either kml or kmz files exist.2021-07-07T18:18:52+02:00Romulo Pereira GoncalvesCheck if either kml or kmz files exist.Unit and Integration testsRomulo Pereira GoncalvesRomulo Pereira Goncalveshttps://git.gfz-potsdam.de/habitat-sampler/HabitatSampler/-/merge_requests/20We are saving run1 object and not run.2021-07-07T15:02:28+02:00Romulo Pereira GoncalvesWe are saving run1 object and not run.Unit and Integration testsRomulo Pereira GoncalvesRomulo Pereira Goncalveshttps://git.gfz-potsdam.de/habitat-sampler/HabitatSampler/-/merge_requests/19renamed the function and output names and put in missing packages for functio...2021-07-02T16:37:56+02:00Johannes Knochrenamed the function and output names and put in missing packages for functions usedUnit and Integration testsJohannes KnochJohannes Knochhttps://git.gfz-potsdam.de/habitat-sampler/HabitatSampler/-/merge_requests/2Docker2021-02-04T09:53:50+01:00Romulo Pereira GoncalvesDockerWith this merge requests we are now able to create a docker image for HabitatSampler.
In the `docker` directory there is a script to build the image and another one to start a docker container. The script to start a docker container all...With this merge requests we are now able to create a docker image for HabitatSampler.
In the `docker` directory there is a script to build the image and another one to start a docker container. The script to start a docker container allows the user to launch either a bash console to start an R instance or a jupyter-lab to run notebooks.
To be able to run HabitatSampler with less resources as possible we now delete the main objects after their last utilization and call R garbage collector `gc(full = TRUE)`. Furthermore, extra arguments were added to the function `multi_Class_Sampling`:
* save_runs : an Habitat object and extra info (to restart a run) is saved (default TRUE)
* max_num_cores : maximum number of cores for parallelism (default 5)
Since we can't launch a web-browser from a docker container, the user can now decide if the images should be either plot via a browser or plotted inline in a notebook. In both cases the interactive plot is saved as a html file in disk.
* plot_on_browser : plot on the browser or inline in a notebook (default TRUE)
All documentation was improved according to the above changes.Unit and Integration testsRomulo Pereira GoncalvesRomulo Pereira Goncalveshttps://git.gfz-potsdam.de/habitat-sampler/HabitatSampler/-/merge_requests/37Improvements misac2022-03-29T10:37:10+02:00Romulo Pereira GoncalvesImprovements misacImprove documentationRomulo Pereira GoncalvesRomulo Pereira Goncalveshttps://git.gfz-potsdam.de/habitat-sampler/HabitatSampler/-/merge_requests/36Improve documentation2022-05-06T15:18:15+02:00Romulo Pereira GoncalvesImprove documentationCloses issues #21, #35, #60, #62Closes issues #21, #35, #60, #62Improve documentationRomulo Pereira GoncalvesRomulo Pereira Goncalveshttps://git.gfz-potsdam.de/habitat-sampler/HabitatSampler/-/merge_requests/52Use mamba environment.2024-01-10T17:50:59+01:00Romulo Pereira GoncalvesUse mamba environment.Upgrade code to stop using rgeos, sp, and rgdalRomulo Pereira GoncalvesRomulo Pereira Goncalveshttps://git.gfz-potsdam.de/habitat-sampler/HabitatSampler/-/merge_requests/51Replace sp, rgdal and rgeos2024-01-10T17:00:25+01:00Romulo Pereira GoncalvesReplace sp, rgdal and rgeos1. We replace the sp, rgdal and rgeos. Instead we use sf package. The raster package (pinned as `r-raster>=3.6.*`) is now using terra package.
2. We now use mamba to manage the R environment and its dependencies.
close issues #75 , #731. We replace the sp, rgdal and rgeos. Instead we use sf package. The raster package (pinned as `r-raster>=3.6.*`) is now using terra package.
2. We now use mamba to manage the R environment and its dependencies.
close issues #75 , #73Upgrade code to stop using rgeos, sp, and rgdalRomulo Pereira GoncalvesRomulo Pereira Goncalveshttps://git.gfz-potsdam.de/habitat-sampler/HabitatSampler/-/merge_requests/50Clean and improve code2024-01-08T15:24:30+01:00Romulo Pereira GoncalvesClean and improve codeUpgrade code to stop using rgeos, sp, and rgdalRomulo Pereira GoncalvesRomulo Pereira Goncalveshttps://git.gfz-potsdam.de/habitat-sampler/HabitatSampler/-/merge_requests/49replace rgdal, sp and rgeos functions by sf functions.2024-01-10T11:15:26+01:00Romulo Pereira Goncalvesreplace rgdal, sp and rgeos functions by sf functions.Upgrade code to stop using rgeos, sp, and rgdalRomulo Pereira GoncalvesRomulo Pereira Goncalveshttps://git.gfz-potsdam.de/habitat-sampler/HabitatSampler/-/merge_requests/48Improve error handling2024-01-05T10:31:38+01:00Romulo Pereira GoncalvesImprove error handlingUpgrade code to stop using rgeos, sp, and rgdalRomulo Pereira GoncalvesRomulo Pereira Goncalveshttps://git.gfz-potsdam.de/habitat-sampler/HabitatSampler/-/merge_requests/53Deployment corrections2024-02-01T13:30:55+01:00Johannes KnochDeployment correctionsSmall change for the docker build file to ensure a correct user for deployment on rz-vm175/177/178Small change for the docker build file to ensure a correct user for deployment on rz-vm175/177/178Johannes KnochJohannes Knochhttps://git.gfz-potsdam.de/habitat-sampler/HabitatSampler/-/merge_requests/47Documentation2022-10-17T13:49:47+02:00Romulo Pereira GoncalvesDocumentationCloses issue #71Closes issue #71Romulo Pereira GoncalvesRomulo Pereira Goncalveshttps://git.gfz-potsdam.de/habitat-sampler/HabitatSampler/-/merge_requests/46Rename the package back to HaSa.2022-10-17T12:24:53+02:00Romulo Pereira GoncalvesRename the package back to HaSa.Romulo Pereira GoncalvesRomulo Pereira Goncalveshttps://git.gfz-potsdam.de/habitat-sampler/HabitatSampler/-/merge_requests/45Issue#682022-10-14T16:36:30+02:00Romulo Pereira GoncalvesIssue#68Closes issues #68Closes issues #68Romulo Pereira GoncalvesRomulo Pereira Goncalveshttps://git.gfz-potsdam.de/habitat-sampler/HabitatSampler/-/merge_requests/44Tag new version2022-10-14T09:40:57+02:00Johannes KnochTag new versionFill HISTORY.rst and increase version in DESCRIPTIONFill HISTORY.rst and increase version in DESCRIPTIONDaniela RabeDaniela Rabehttps://git.gfz-potsdam.de/habitat-sampler/HabitatSampler/-/merge_requests/42bugfix for #692022-10-17T14:49:33+02:00Johannes Knochbugfix for #69fast fix for issue #69fast fix for issue #69Johannes KnochJohannes Knochhttps://git.gfz-potsdam.de/habitat-sampler/HabitatSampler/-/merge_requests/41Draft:bugfix for #692022-10-05T11:45:00+02:00Johannes KnochDraft:bugfix for #69Solves the second issue mentioned in #69 (`plot_results`)
First issue is sovled by e12f3de2088b1db02efad1874591d172a2ee0fae (`multi_Class_Sampling`)Solves the second issue mentioned in #69 (`plot_results`)
First issue is sovled by e12f3de2088b1db02efad1874591d172a2ee0fae (`multi_Class_Sampling`)Johannes KnochJohannes Knoch