CHANGELOG

Contents

CHANGELOG#

v1.9.4 (2025-09-23)#

Bug fixes#

  • Regression bug in file naming conventions (saxony -> sachsen) (75364a6)

v1.9.3 (2025-09-23)#

v1.9.2 (2025-09-23)#

Bug fixes#

  • Missing return true on successful download in get_zip_extract() (8ef7950)

  • Region selection not properly parametrized in notebook 203 and 204 (78cae66)

  • 00_data folder does not exist in notebook 205 (9373a4e)

v1.9.1 (2025-09-22)#

Bug fixes#

Style#

Refactoring#

  • Properly parametrize variable ‘sachsen’ to ‘region’ (cca9a4a)

v1.9.0 (2025-09-17)#

Bug fixes#

  • Use cache only for english sparrow (a72420f)

Chores#

  • Release version notebook update (e2a64dd)

Documentation#

  • Minor update to file list descriptors (e913c8d)

  • Add rdm philosophy graphic (svg) (7380dbe)

  • Add rdm philosophy figure from cld (b1d6c66)

  • Add cordi reference (4c3a91e)

  • Update file list overview; add github link for external contributions (9d39dc2)

Features#

  • Add graceful gbif rate limiting catch (421ea5f)

Refactoring#

  • Update method to remove deprecation notice (4144ec7)

  • Update plot after updated response (bd74346)

  • Use species_common_name as plot title (b142f60)

  • Select species only once (a5136be)

  • Add heading (9ea85f7)

v1.8.0 (2025-06-04)#

Bug fixes#

  • Remove hardcoded citations in notebook (a6caacf)

  • Update in-text references to textual citations (f6e446d)

Style#

  • Use round parenthesis instead of brackets for in-text references (3b3500e)

  • Change bibliography style to plain (bb9a8cd)

  • Switch to author_year citation format (79919ca)

  • Use superscript for reference citation labels (936d5a2)

Documentation#

  • Add steps to list bibliography (c7849ed)

  • Explain how to use the bibfile and in-text reference notation (f7df4ba)

Features#

  • Add badge for doi link (2b2e54b)

  • Add citation style override to allow for apa-style references (c65354c)

  • Add bibliography (bee6569)

v1.7.1 (2025-06-02)#

Bug fixes#

  • Revise theroy chapters, cite fischer et al 2023 (bbd1c0c)

  • Add warning for ambiguity of common names mapping (f7ec0f6)

  • Replace ioerdata example with json retrieved via url (c7bd9f0)

Documentation#

  • Minor changes and rephrasing (eb15cc3)

v1.7.0 (2025-05-26)#

Bug fixes#

  • Base_path not found (e098636)

  • Remove .git suffix from github url (36bfc3f)

Features#

  • Add launch button for colab (1aa97a4)

Refactoring#

  • Disable colab for the meantime (47cdb31)

v1.6.11 (2025-05-23)#

Bug fixes#

  • Remove prefix for released section, too (ccc0836)

v1.6.10 (2025-05-23)#

Bug fixes#

  • Remove prefixes from invididual commit messages in changelog (c4d9dcc)

Style#

  • Improve plot by placing legend horizontally below map (502e48b)

v1.6.9 (2025-05-22)#

Bug fixes#

  • Code style changelog mapping (97241b5)

  • Code style changelog mapping (b522527)

v1.6.8 (2025-05-22)#

Bug fixes#

  • Rename section “code style” to “style” in changelog (36cf119)

v1.6.7 (2025-05-22)#

Bug fixes#

Documentation#

  • Add missing toc entry (d5b3af0)

  • Add link to contribution section (5a09171)

  • Fix cross-link (f507290)

  • Add link to conventional commits 1.0.0 specification (dd14a6a)

  • Fix typo (c40dce5)

  • Add explanation for params from requests.get() (8b2beaf)

  • Explain where the gbif dataset key comes from (376f9d4)

Refactoring#

v1.6.6 (2025-05-13)#

Bug fixes#

  • Regression in changelog generation (858082b)

v1.6.5 (2025-05-13)#

Bug fixes#

  • Commit subjects disappeared after cleaned up changelog template (c41b908)

v1.6.4 (2025-05-13)#

Bug fixes#

  • Include stefano and nicolaas in endmatter (71b2c80)

Continuous integration#

  • Use reduced changelog template (without commit body) (de1e287)

v1.6.3 (2025-05-13)#

Bug fixes#

  • Markdown formatting (f7d49f5)

  • Make notebook 205 compatible with jupyter4nfdi hub (903d375)

  • Add missing reference bib (0f41cc6)

  • Video shown in html, but not in notebook itself (e98c169)

  • Add missing references section (1c8ea4b)

  • Add introduction and motivation to notebooks 501 and 502 (c72b63f)

Style#

Documentation#

  • Minor rephrase (be more specific) (b0eb969)

  • Rephrase and add explanation for how to use install script (53b7eeb)

  • Add note for gitlab and github (515ec06)

  • Rephrase admonition (74aa495)

Refactoring#

  • Hide input (311d200)

  • Do not use “api” when referring to a url (f9cf8bf)

  • Remove deprecated mp4 videos (converted to webp) (c30e178)

  • Add explicit print to show output (a49f443)

v1.6.2 (2025-05-12)#

v1.6.1 (2025-05-12)#

Bug fixes#

  • Load missing tools module (922e3af)

  • Add cache for monitor api queries (32578c2)

  • Load api cache if species did not change (make notebook reproducible on nfdi hub) (54078e3)

Style#

  • Hide cell; update notebook with api key available (2ae56ba)

Documentation#

  • Add cross-ref for monitor api key registration (bc9e738)

v1.6.0 (2025-05-07)#

Bug fixes#

  • Max width of video (5d7c647)

  • Update binder link graphic to match jupyter4nfdi (305ef0f)

Continuous integration#

  • Apply patch to main, too (b896fa0)

Features#

  • Add video showing how to run notebooks in jupyter4nfdi hub (792abbb)

v1.5.1 (2025-05-02)#

Bug fixes#

  • Make sure dependencies are available for notebook 204 (3a358ce)

  • Make sure dependencies are available for notebook 203 (e49e2bd)

  • Make sure dependencies are available for notebook 202 (286574b)

  • Make sure dependencies are available for notebook 310 (6f303a6)

  • Make sure dependencies are available for notebook 309 (1bdd375)

  • Make sure dependencies are available for notebook 308 (81ec48b)

  • Make sure dependencies are available for notebook 307 (1c47838)

  • Make sure dependencies are available for notebook 306 (a0bb6c1)

  • Make sure output path exists, if not create it (1c6913e)

  • Make sure dependencies are available for notebook 305 (17d3a34)

  • Add dependencies to notebook 304 check (16eafdb)

  • Make sure that dependencies are installed (3832b99)

  • Shapefiles not extracted (de53336)

  • Add missing dependency (4bda384)

Continuous integration#

Documentation#

  • Add working on a copy of data note (63bf3ab)

  • Add ioerdata test warning note (2052d66)

Refactoring#

  • Correct upstream name in zip file (3433c6a)

v1.5.0 (2025-04-30)#

Bug fixes#

  • Compatibility with jupyter4nfdi hub (bd172ac)

Continuous integration#

  • Fix mermaid-cli (mmdc not found) (56cbc37)

Features#

  • New header image from nicolaas (89b947e)

Refactoring#

  • Update year in copyright footer (eaaeb76)

v1.4.0 (2025-04-29)#

Bug fixes#

  • Change to binder hub url (c217781)

  • Make dependency preparation script environment-agnostic (57b11c5)

  • Place anchor above header (07edc41)

  • Move data retrieval to first notebook of reference documentation (1f12320)

  • Merge conflict, unfinished rebase (93f25e1)

  • Use color logo fdz in dark mode, too (nicolaas) (1fdd65f)

Style#

Documentation#

  • Update notebook 202 content (ba3b7ee)

Features#

  • Add jupyter4nfdi hub integration documentation (9ce36a1)

  • Enable jupyter4nfdi hub link in interface (04807e3)

Refactoring#

v1.3.0 (2025-04-04)#

Bug fixes#

Style#

  • Hide prompt and answer behind dropdown (c358fb7)

  • Remove output (fd6c9ef)

Documentation#

Features#

Refactoring#

  • Reorder cells (b5b2c8c)

  • Add proper header and attribution, license (1bba731)

v1.2.0 (2025-04-03)#

Documentation#

Features#

v1.1.0 (2025-04-03)#

Bug fixes#

Style#

Features#

  • Add directory tree output (7333e04)

Refactoring#

  • Use short intext-references, link to reference section (47358ac)

  • Revise release generation script (afc19d1)

v1.0.0 (2025-04-02)#

v0.8.0 (2025-04-02)#

Bug fixes#

  • Several issues in consistency of code; reduce warnings (66d1827)

  • Add summary to notebook 305 (cd8c94f)

  • Content block expected for the admonition directive (4ad3e1f)

  • Cross-reference target not found (b28f5da)

  • Non-consecutive header level increase; h1 to h3 (f83ccaf)

  • Jupyter book command (e8e3f91)

  • Jupyter book command (def7fe6)

  • Jupyter book command (1d323fe)

  • ‘references.bib’ is not of type ‘array’ (942bbaf)

  • Wrong shell, use bash (4552d75)

  • Ci (b18a731)

  • Enable heading anchors for h1-h3 (610e7e3)

  • Removing the image (937faa9)

Style#

Continuous integration#

  • Update image version with fixed muffet binary (77a821e)

  • Fix muffet not available in image (7da7692)

  • Add wait command (6802ef3)

Documentation#

Features#

  • Add crosslink for urlencode (cf9c969)

  • Make first major release (c1c2c0f)

  • Add link-check in ci (36b2fe1)

Refactoring#

  • Change public repo url from gitlab to github (11ebbf2)

v0.7.1 (2025-03-28)#

Bug fixes#

v0.7.0 (2025-03-28)#

v0.6.5 (2025-03-27)#

v0.6.4 (2025-03-27)#

v0.6.3 (2025-03-27)#

v0.6.2 (2025-03-24)#

Bug fixes#

Style#

Documentation#

  • Add note for releases (98d322a)

  • Add note for html publication (0dc2ccf)

  • Remove todo section (cc94bb0)

  • Update contributing section (47f3462)

  • Slight rephrase (1318c44)

  • Change datasets to further datasets (ed0ae96)

  • Add thank you and outlook (7d66add)

  • Add motivation (why) to theory chapters beginning (d36a9eb)

  • Adding image for the projection (2480102)

Features#

Performance improvements#

v0.6.1 (2025-03-24)#

Bug fixes#

  • Ci semantic-version; update image (1470b09)

  • Manual version bump (4df2763)

Continuous integration#

v0.6.0 (2025-03-24)#

Bug fixes#

Style#

  • Add external link arrow according to nicolaas (db3d5a4)

  • Add linebreak in title (too long) (f7553a0)

  • Background map change from cartodb to osm (9ae233e)

Documentation#

Features#

  • Bump version (2daab08)

  • Split data retrieval into gbif and monitor notebooks (8f9ce41)

  • Add wfs query code (1bf05e7)

  • First draft of analysis and visualization notebook (4008cf5)

  • Add clipping step (suggestion by martin s.) (2ec7286)

Refactoring#

  • Minor code conventions (69ca5e5)

  • Remove visualization chapter (0253b66)

  • Some improvements for supporting analysis and visualzation in the next notebook (2fba44a)

  • Simplify syntax (268f159)

  • Add comments (15d8813)

v0.2.5 (2025-01-31)#

Bug fixes#

  • Replace introduction, move to intro-notebook (root) (1a663dd)

  • Buffer mistakes (5ec7a67)

  • Use english imprint (etc.) captions & links (b195246)

  • Size of image (ad67de2)

  • Image visualizations (5897fe5)

  • Fixing the visualization errors (d563211)

  • Adding explanations in buffer (3ee5aba)

  • Fixing visualization errors (eb45ea4)

  • Clarifying the buffer section (6b1c6b1)

Style#

  • Font size in figure captions (b4aeec3)

  • Do not use italic in headings (151eb4a)

  • Large overhaul regarding comments from nicolaas [1] (86a170f)

Documentation#

  • Adding the clc and some modifications (aedc415)

Features#

Refactoring#

  • Change to remove input (5cdd0b1)

  • Move imports to top and add version output (42951d9)

  • Overhaul notebook, improve code legibility (d6d88e2)

v0.2.4 (2025-01-16)#

Bug fixes#

Style#

  • Disable shadow effectg on logos (7f6d1e7)

  • Use white as active link color, instead of orange (re: nicolaas) (5abb3e3)

  • Change color of ‘welcome’ to dark orange (re: nicolaas) (39c34fb)

  • Further reduce font weight in body (d505d46)

  • Reduce font size and weight (re: nicolaas) (d8c548e)

  • Change font style regarding reccomendation from nicolaas (339860b)

  • Adjust green in badge images to fit ioer green (ef10daa)

  • Follow nicolaas recommendation to fix color issue in toc tree (e58d515)

v0.2.3 (2025-01-15)#

Bug fixes#

Style#

  • Increase y-size of geoviews plot (33c0533)

  • Center cell output img (c912057)

  • Try nested code block (2c10128)

  • Add indentation (6eb7b52)

  • Transform into list (b06233b)

  • Disable shadow effect on graphics shown from jupyter cell output (aeb0e3d)

Documentation#

  • Add note to preview map first (bbe7f20)

Refactoring#

  • Use native markdown line breaks (4fb2e4e)

v0.2.2 (2024-12-10)#

Bug fixes#

v0.2.1 (2024-12-10)#

Bug fixes#

Style#

  • Correct css selector for disabling box-shadow (7daf6b6)

  • Change to quote (4038b80)

  • Make figure captions a bit larger (f6f6954)

  • Add drop-shadow to article images (a0dcd11)

  • Use correct admonition (e3a05ba)

Continuous integration#

Documentation#

  • Add styling conventions (6f2072b)

Refactoring#

  • Add links to introduction, style admonitions (0de2d6b)

v0.2.0 (2024-12-10)#

Continuous integration#

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