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v3.2 #153

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merged 211 commits into from
Dec 16, 2024
Merged

v3.2 #153

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7c9fa35
Update issue templates
lachlangrose May 20, 2024
bad96ed
feat: added issue_templates
AngRodrigues May 22, 2024
8e2b386
fix: add pull request template
AngRodrigues May 23, 2024
9288594
fix: few typos grammar
AngRodrigues May 23, 2024
62a4706
fix: tests should be with pytest
AngRodrigues May 23, 2024
c433143
Merge pull request #75 from Loop3D/fix/adding_issue_templates
AngRodrigues May 26, 2024
e1ef2a0
Revert "Update issue templates"
AngRodrigues May 27, 2024
08ce648
fix: trigger build
lachlangrose May 9, 2024
3f1b453
style: style fixes by ruff and autoformatting by black
lachlangrose May 9, 2024
33c663d
chore(master): release 3.1.1
github-actions[bot] May 9, 2024
111af95
fix: update doc deploy
AngRodrigues May 9, 2024
43d2b3d
chore(master): release 3.1.2
github-actions[bot] May 9, 2024
60b551e
docs: remove lavavu; no need for 3D vis for the examples
AngRodrigues May 14, 2024
ef446ce
style: style fixes by ruff and autoformatting by black
AngRodrigues May 14, 2024
1809857
fix: remove tini from docker
AngRodrigues May 14, 2024
a5312bc
chore(master): release 3.1.3
github-actions[bot] May 14, 2024
b7385d2
Update issue templates
lachlangrose May 20, 2024
e956c92
feat: added issue_templates
AngRodrigues May 22, 2024
9597a97
fix: add pull request template
AngRodrigues May 23, 2024
d97b78a
fix: few typos grammar
AngRodrigues May 23, 2024
7cb3d47
fix: tests should be with pytest
AngRodrigues May 23, 2024
a126d02
Revert "Update issue templates"
AngRodrigues May 27, 2024
9f427bc
Merge branch 'revert-75-fix/adding_issue_templates' of https://github…
rabii-chaarani May 27, 2024
aef79d6
fix: add issue templates back
AngRodrigues May 28, 2024
79d4169
fix: correct grammar for clarity
AngRodrigues May 28, 2024
e506870
Merge pull request #83 from Loop3D/revert-75-fix/adding_issue_templates
AngRodrigues May 28, 2024
91f77f9
Merge branch 'master' of https://github.com/Loop3D/map2loop into v3.2
AngRodrigues May 31, 2024
106a102
Merge branch 'master' into v3.2
rabii-chaarani Jun 12, 2024
3fe4d6b
Merge branch 'master' of https://github.com/Loop3D/map2loop into v3.2
AngRodrigues Jun 13, 2024
faca924
Merge branch 'master' into v3.2
rabii-chaarani Jun 13, 2024
60483c8
Merge branch 'master' of https://github.com/Loop3D/map2loop into v3.2
AngRodrigues Jun 18, 2024
7d2d659
fix: squashed commits of: - fixing the non-use of minimum_fault_lengt…
AngRodrigues Jun 19, 2024
3a48005
tests: add more functionality
AngRodrigues Jun 19, 2024
8b3c348
fix: leave as is for now
AngRodrigues Jun 19, 2024
44bfa06
fix: finalise the thickness calculator outputs
AngRodrigues Jun 20, 2024
d6816e3
fix: Remove hjson and rely on json only
RoyThomsonMonash Jul 3, 2024
c60ed2c
fix: update tests/ small fixes
AngRodrigues Jul 8, 2024
0c3ca64
Merge branch 'master' of https://github.com/Loop3D/map2loop into remo…
AngRodrigues Jul 8, 2024
77e7233
fix: make sure dependencies are right
AngRodrigues Jul 8, 2024
b07f15e
Merge branch 'master' of https://github.com/Loop3D/map2loop into v3.2
AngRodrigues Jul 8, 2024
7deae3c
fix: linting issue
AngRodrigues Jul 8, 2024
ff42327
fix: try again
AngRodrigues Jul 8, 2024
9f701d1
Merge branch 'master' of https://github.com/Loop3D/map2loop into fix/…
AngRodrigues Jul 8, 2024
f256ca8
fix: update thickness tests//fix minor typos
AngRodrigues Jul 8, 2024
2451679
fix: correct some typos/update tests
AngRodrigues Jul 8, 2024
31073dc
fix: typo in tests
AngRodrigues Jul 8, 2024
de35af5
Update README.md
AngRodrigues Jul 8, 2024
3f42692
fix: add the basal_contacts_abnormal_check
AngRodrigues Jul 8, 2024
35b9097
fix: add error handles for json, url, filenotfound
AngRodrigues Jul 10, 2024
ae22adc
fix: remove typo
AngRodrigues Jul 10, 2024
72aa32d
fix: remove tqdm
AngRodrigues Jul 10, 2024
8867454
Merge pull request #109 from Loop3D/remove_hjson
AngRodrigues Jul 10, 2024
5983ca2
fix: added check for collocated points
rabii-chaarani Aug 7, 2024
49202dd
Merge branch 'master' of https://github.com/Loop3D/map2loop into fix/…
AngRodrigues Aug 9, 2024
7a483ef
fix: upd gdal as per master
AngRodrigues Aug 9, 2024
6887ae3
fix: remove test from server
AngRodrigues Aug 9, 2024
31255ea
fix: issue 122
AngRodrigues Aug 8, 2024
d7b09e0
fix: update str format
AngRodrigues Aug 9, 2024
bdfd9aa
fix: now use DBSCAN to aggregate collocated poins
rabii-chaarani Aug 9, 2024
45c1798
fix: removed addition
rabii-chaarani Aug 9, 2024
8b406ea
fix: added warning when collocated points detected
rabii-chaarani Aug 9, 2024
543c122
Merge branch 'master' of https://github.com/Loop3D/map2loop into fix/…
AngRodrigues Aug 12, 2024
c10c2e3
fix: add str for paths - gdal does not accept pathlibs
AngRodrigues Aug 12, 2024
80a27f6
Merge branch 'master' of https://github.com/Loop3D/map2loop into fix/…
AngRodrigues Sep 25, 2024
e78ea7e
fix: update minimum_fault_length as per code review
AngRodrigues Sep 26, 2024
fb5efae
fix: add pathlibs where possible in m2model_wrapper
AngRodrigues Sep 26, 2024
8892241
fix: add pathlib in mapdata.py
AngRodrigues Sep 26, 2024
a9265b0
fix: merge coll points branch and remove linalg catch
AngRodrigues Sep 26, 2024
5a5e0d7
fix: revert pathlib in map2model.run
AngRodrigues Sep 26, 2024
6b95466
fix: proj should not have temp files
AngRodrigues Sep 26, 2024
23873fa
fix: update the minimum_fault_length
AngRodrigues Sep 26, 2024
e491b29
tests: add tests for minimum_fault_length
AngRodrigues Sep 26, 2024
94ea056
fix: remove redundancy from project.py
AngRodrigues Sep 26, 2024
0857f23
fix: update calculate minimum_fault_length for 5% of the map area
AngRodrigues Oct 1, 2024
d73b748
fix: linting
AngRodrigues Oct 1, 2024
dbc8495
fix: typo
AngRodrigues Oct 1, 2024
a5a29e4
fix: remove repetitive print stat
AngRodrigues Oct 22, 2024
f8e855c
fix: adjust thickness_calc workflow for modularity
AngRodrigues Oct 22, 2024
da9d5ad
fix: remove unnecessary fields
AngRodrigues Oct 22, 2024
4096603
fix: update thickness tests
AngRodrigues Oct 22, 2024
c041ff5
Merge branch 'master' of https://github.com/Loop3D/map2loop into fix/…
AngRodrigues Oct 22, 2024
58edbbf
fix: add ignore_fault_codes and tests for ignore_lithology_code and i…
AngRodrigues Oct 22, 2024
0c236b8
fix: try relative path ../_datasets
rabii-chaarani Oct 22, 2024
a797855
fix: use only path instead of pkg_resources
rabii-chaarani Oct 22, 2024
b2ea63f
fix: try full path
rabii-chaarani Oct 22, 2024
dd1234d
fix: load only using path /hamersley
rabii-chaarani Oct 22, 2024
ab64683
fix: try ./map2loop/_datasets/geodata_files/
rabii-chaarani Oct 22, 2024
bcf114b
fix: use correct path
rabii-chaarani Oct 22, 2024
ac61527
refactor: back to original code
rabii-chaarani Oct 23, 2024
d494296
fix: add the whole hamersley folder
AngRodrigues Oct 30, 2024
52c6724
fix: update docker for docs
AngRodrigues Oct 31, 2024
ff27e8b
fix: update the docs-deploy for master branch only
AngRodrigues Oct 31, 2024
ef9289e
fix: update CI to build on master only
AngRodrigues Oct 31, 2024
e412c17
fix: remove redundancy
AngRodrigues Oct 31, 2024
53e9e91
fix: update the server test and handle timeout properly
AngRodrigues Oct 31, 2024
084774c
fix: updated ReadMe to have the right install steps (temporary measure)
AngRodrigues Oct 31, 2024
9296a9c
fix: update CI - test wheels on master only
AngRodrigues Nov 1, 2024
6359c1c
fix: add test to sdist build in CI to ensure tests are run in the non…
AngRodrigues Nov 1, 2024
db70684
fix: update pytest in ci
AngRodrigues Nov 1, 2024
334822f
fix: revert ci
AngRodrigues Nov 1, 2024
2be26cc
fix: add pytest in the right place
AngRodrigues Nov 1, 2024
23a5092
fix: update pytest location
AngRodrigues Nov 1, 2024
900a73f
fix: manifest update
AngRodrigues Nov 1, 2024
da8d88a
fix: update ci again
AngRodrigues Nov 1, 2024
4b76f5a
investigate
AngRodrigues Nov 1, 2024
f825700
find the install folder
AngRodrigues Nov 1, 2024
2eb2630
try again
AngRodrigues Nov 1, 2024
074a3d7
update ci
AngRodrigues Nov 1, 2024
86ba08b
fix: add checkout step to build sdist
AngRodrigues Nov 1, 2024
cf21ab5
fix: run pytest with test sdist action
AngRodrigues Nov 1, 2024
ec24c84
fix: revert CI and let tests only run on main branch
AngRodrigues Nov 1, 2024
af63731
fix: add version check new class to check install of dependencies.tx…
AngRodrigues Nov 1, 2024
4aa4a3d
fix: organise manifest
AngRodrigues Nov 1, 2024
9e94fd3
Merge branch 'master' of https://github.com/Loop3D/map2loop into v3.2
AngRodrigues Nov 20, 2024
c06217e
Merge branch 'fix/thicknesses_AR_2' of https://github.com/Loop3D/map2…
AngRodrigues Nov 20, 2024
593b17f
fix: linting fixes from merges
AngRodrigues Nov 20, 2024
4acf1f3
Merge branch 'master' of https://github.com/Loop3D/map2loop into v3.2
AngRodrigues Nov 20, 2024
6b0a9d7
fix: update CI to run all jobs on branch
AngRodrigues Nov 20, 2024
c42c425
fix: update map2model paths
AngRodrigues Nov 20, 2024
042ce9d
fix: update LPF to install from branch
AngRodrigues Nov 20, 2024
07d326e
fix: update install from branch
AngRodrigues Nov 20, 2024
6c81ada
fix: update the lpf to branch in wheel testing
AngRodrigues Nov 20, 2024
51445f2
fix: build the docs on this branch
AngRodrigues Nov 20, 2024
98fe163
fix: keep docs separate
AngRodrigues Nov 20, 2024
eca9565
fix: pypi and conda upld runs only on master
AngRodrigues Nov 20, 2024
873d768
fix: test the docs on the branch too
AngRodrigues Nov 20, 2024
77f1e61
fix: update docs docker to build lpf from branch
AngRodrigues Nov 20, 2024
d5415a4
fix: install sphinx with apt-get?
AngRodrigues Nov 20, 2024
b37ee77
docs: change sphinx build path
AngRodrigues Nov 20, 2024
0b73226
fix: update build path docs
AngRodrigues Nov 20, 2024
24b50fa
docs: update build requirements
AngRodrigues Nov 20, 2024
3469f53
fix: add beartype
AngRodrigues Nov 20, 2024
c378e62
docs: typo in docker?
AngRodrigues Nov 20, 2024
ee82e30
fix: remove redundant beartpe install
AngRodrigues Nov 20, 2024
eaf7c89
chore: typo
AngRodrigues Nov 25, 2024
2585adf
fix: simplify issue templates
AngRodrigues Nov 25, 2024
93cbbaa
chore: hjson not in 3.2
AngRodrigues Nov 25, 2024
ba394f1
fix: remove hjson from dependencies as not in 3.2
AngRodrigues Nov 25, 2024
be3a3e7
doc: removing min fault length attribute docstring
lachlangrose Nov 25, 2024
d77afc3
fix: adding min fault length setter back to project. Linking to confi…
lachlangrose Nov 25, 2024
ebf2983
fix: min fault length setter/getter for mapdata uses config attribute
lachlangrose Nov 25, 2024
d97afd0
No data min fault length is -1
lachlangrose Nov 25, 2024
fc4fe75
chore: test unpin gdal from ci
AngRodrigues Nov 25, 2024
1652a5d
fix: remove sphinx from docs docker build
AngRodrigues Nov 25, 2024
8dca886
chore: try again
AngRodrigues Nov 25, 2024
56166f6
fix: map2model fault fault relationships (#140)
lachlangrose Nov 26, 2024
ceff9b1
feat: make map2model optional using geopandas spatial joins as a repl…
lachlangrose Nov 27, 2024
b7c9c04
fix: make the minimum_fault_length updatable through project
AngRodrigues Nov 28, 2024
cde6a11
fix: add libgdal to docs docker
AngRodrigues Nov 28, 2024
7c09a80
typo
AngRodrigues Nov 28, 2024
1791acb
fix: try other gdal on docs
AngRodrigues Nov 28, 2024
a94e67c
more gdal issues
AngRodrigues Nov 28, 2024
32d3683
fix: revert the gdal pin removal to see if that's the issue
AngRodrigues Nov 28, 2024
0d6c5ed
fix: use minimum fault length from project
lachlangrose Nov 29, 2024
2dad8e7
fix: use separate thickness table in LPF & add active thickness to pr…
lachlangrose Dec 3, 2024
8218a3a
feat: do not accept any legacy files
AngRodrigues Dec 3, 2024
5a411c6
Merge branch 'v3.2' of https://github.com/Loop3D/map2loop into feat--…
AngRodrigues Dec 3, 2024
8d926ef
chore: small typo
AngRodrigues Dec 3, 2024
5830ef7
remove legacy format arguments
lachlangrose Dec 3, 2024
b265b3b
add config file path back
lachlangrose Dec 3, 2024
bc2f2ff
fix: allow json files, check for old keys
AngRodrigues Dec 5, 2024
7b33698
chore: add/fix/update logger outputs
AngRodrigues Dec 5, 2024
1c55458
chore: more logging
AngRodrigues Dec 5, 2024
02e3003
chore: update tests to not rely on warnings
AngRodrigues Dec 5, 2024
f2576ff
chore: proper string formatting
AngRodrigues Dec 5, 2024
4ce6d7d
fix: small fixes for deprecation/linting warnings in test sessions
AngRodrigues Dec 5, 2024
add4692
chore: update actions from deprecation
AngRodrigues Dec 5, 2024
227e59a
fix: issue 155 (#158)
AngRodrigues Dec 9, 2024
809019e
Merge pull request #159 from Loop3D/feat--remove-legacy_2
lachlangrose Dec 11, 2024
685aa00
fix: remove print statement left behind
AngRodrigues Dec 11, 2024
636a140
chore: update docstrings
AngRodrigues Dec 11, 2024
e64cc77
fix: gdal: test if conda issue
AngRodrigues Dec 11, 2024
99162cd
fix: revert
AngRodrigues Dec 11, 2024
cd29856
remove gdal pin??
AngRodrigues Dec 11, 2024
7bf14b1
fix: keep gdal pin for now
AngRodrigues Dec 12, 2024
95e94c6
fix: add debug info to thickness calculators (#161)
AngRodrigues Dec 12, 2024
8401aee
chore: empty commit to trigger ci run
AngRodrigues Dec 12, 2024
af7bdf2
chore: update typing to avoid deprecation
AngRodrigues Dec 12, 2024
7ab55ff
fix: update ubuntu
AngRodrigues Dec 12, 2024
6a3b081
ci: small updates
AngRodrigues Dec 12, 2024
0423ead
fix: dependencies updated
AngRodrigues Dec 15, 2024
783a0e8
fix: update LPF dependency
AngRodrigues Dec 15, 2024
972905c
fix: update linting and release-please
AngRodrigues Dec 15, 2024
022a676
ci: typos
AngRodrigues Dec 15, 2024
e722105
ci: keep release-please separate from linting
AngRodrigues Dec 15, 2024
94d0dec
ci: update testing
AngRodrigues Dec 15, 2024
b10e64f
ci: add pytest
AngRodrigues Dec 15, 2024
5260bd8
ci: update testing workflow
AngRodrigues Dec 15, 2024
7fdf798
ci: update linting action
AngRodrigues Dec 15, 2024
1e7aa58
chore: upd conda meta
AngRodrigues Dec 15, 2024
01b9b22
style: style fixes by ruff and autoformatting by black
AngRodrigues Dec 15, 2024
849388a
ci: add conda & pypi
AngRodrigues Dec 15, 2024
7124046
Merge branch 'v3.2' of https://github.com/Loop3D/map2loop into v3.2
AngRodrigues Dec 15, 2024
96fcbe8
ci: add docs
AngRodrigues Dec 15, 2024
f2823e1
ci: update to ubuntu24.04
AngRodrigues Dec 15, 2024
0dd3883
ci: force docs to branch gh ref
AngRodrigues Dec 15, 2024
1a70ecf
chore: add testing badge to readme
AngRodrigues Dec 15, 2024
2432b6e
chore: add release badge
AngRodrigues Dec 16, 2024
7e27c9b
Update README.md
AngRodrigues Dec 16, 2024
6fa0705
Update README.md
AngRodrigues Dec 16, 2024
96399fe
fix: update conda and pip builds
AngRodrigues Dec 16, 2024
d775072
ci: add classic solver
AngRodrigues Dec 16, 2024
fc392a7
ci: add extra action to test conda build and install
AngRodrigues Dec 16, 2024
af44663
ci update
AngRodrigues Dec 16, 2024
024a129
ci: update
AngRodrigues Dec 16, 2024
d74d70c
gdal pin?
AngRodrigues Dec 16, 2024
c44e6a0
add libmamba
AngRodrigues Dec 16, 2024
f1888ec
chore: typos
AngRodrigues Dec 16, 2024
275ed33
Fix: update gdal install in actions (#163)
AngRodrigues Dec 16, 2024
97cf7d3
ci: remove the build test for now
AngRodrigues Dec 16, 2024
0ec506d
Merge branch 'v3.2' of https://github.com/Loop3D/map2loop into v3.2
AngRodrigues Dec 16, 2024
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39 changes: 6 additions & 33 deletions .github/ISSUE_TEMPLATE/bug_report.yml
Original file line number Diff line number Diff line change
Expand Up @@ -6,7 +6,7 @@ body:
- type: markdown
attributes:
value: |
## Bug Report
## 🐛 Bug Report
Thanks for submitting a bug report to map2loop!
Please use this template to report a bug. Please provide as much detail as possible to help us reproduce and fix the issue efficiently.

Expand All @@ -16,6 +16,8 @@ body:
label: Version
description: What version of map2loop and LoopProjectFile are you running? You can find this information by running `import map2loop` and `map2loop.__version__` in your python terminal or jupyter notebook.
placeholder: "Enter map2loop and LoopProjectFile versions"
validations:
required: true

- type: textarea
id: bug_description
Expand All @@ -33,25 +35,7 @@ body:
description: "Provide a minimal reproducible example with the code necessary to reproduce the bug. For more guidance, visit: [How to create a minimal complete reproducible example](https://forum.access-hive.org.au/t/how-to-create-a-minimal-complete-reproducible-example/843)"
placeholder: "Enter the steps to reproduce the bug"
validations:
required: true

- type: textarea
id: expected_behavior
attributes:
label: "Expected Behavior"
description: "Describe what you expected to happen."
placeholder: "Enter the expected behavior"
validations:
required: true

- type: textarea
id: actual_behavior
attributes:
label: "Actual Behavior"
description: "Describe what actually happened when you encountered the bug."
placeholder: "Enter the actual behavior"
validations:
required: true
required: false

- type: textarea
id: additional_context
Expand All @@ -69,18 +53,7 @@ body:
description: "Specify the environment in which the bug occurred (e.g., operating system, browser, application version)."
placeholder: "Enter the environment details"
validations:
required: true
required: false


- type: checkboxes
id: severity
attributes:
label: "Severity"
description: "Select the severity level of the bug."
options:
- label: "Low"
- label: "Medium"
- label: "High"
- label: "Critical"
validations:
required: true

14 changes: 2 additions & 12 deletions .github/ISSUE_TEMPLATE/documentation_request.yml
Original file line number Diff line number Diff line change
Expand Up @@ -6,8 +6,7 @@ body:
- type: markdown
attributes:
value: |
## Documentation Request

## 📓 Documentation Request
Please use this template to suggest an improvement or addition to map2loop documentation.
Provide as much detail as possible to help us understand and implement your request efficiently

Expand All @@ -18,13 +17,4 @@ body:
description: "Describe the documentation you would like to see. Include details on why it is needed and how it should be structured."
placeholder: "Enter a detailed description of the documentation"
validations:
required: true

- type: textarea
id: additional_context
attributes:
label: "Additional Context"
description: "Any other context or information that may be helpful."
placeholder: "Enter any additional context"
validations:
required: false
required: true
41 changes: 1 addition & 40 deletions .github/ISSUE_TEMPLATE/feature_request.yml
Original file line number Diff line number Diff line change
Expand Up @@ -6,8 +6,7 @@ body:
- type: markdown
attributes:
value: |
## Feature Request

## 🚀 Feature Request
Please use this template to submit your feature request. Provide as much detail as possible to help us understand and implement your request efficiently.

- type: checkboxes
Expand All @@ -29,50 +28,12 @@ body:
validations:
required: true

- type: textarea
id: current_situation
attributes:
label: "Current Situation"
description: "Describe the current situation and how the absence of this feature affects you."
placeholder: "Explain the current situation and its drawbacks"
validations:
required: true

- type: textarea
id: version
attributes:
label: Version
description: What version of map2loop and LoopProjectFile are you running that doesn't have this feature? You can find this information by running `import map2loop` and `map2loop.__version__` in your python terminal or jupyter notebook.
placeholder: "Enter map2loop and LoopProjectFile versions"

- type: textarea
id: proposed_solution
attributes:
label: "Proposed Solution"
description: "Describe how you envision the feature working. Include any specific requirements or details"
placeholder: "Explain how the feature should work"
validations:
required: true

- type: input
id: additional_context
attributes:
label: "Additional Context"
description: "Provide any other context or information that may be helpful in understanding the feature request."
placeholder: "Enter any additional context"
validations:
required: false

- type: checkboxes
id: affected_areas
attributes:
label: "Affected Areas"
description: "Select the areas of the project that this feature request impacts."
options:
- label: "input data"
- label: "project creation"
- label: "samplers"
- label: "sorters"
- label: "stratigraphic column"
- label: "data types"
- label: "Other"
7 changes: 3 additions & 4 deletions .github/ISSUE_TEMPLATE/question.yml
Original file line number Diff line number Diff line change
Expand Up @@ -6,8 +6,7 @@ body:
- type: markdown
attributes:
value: |
## Question

## 💬 Question
Please use this template to ask a question about applying map2loop to your data.
Provide as much detail as possible to help us understand and answer your question efficiently.

Expand All @@ -29,11 +28,11 @@ body:
validations:
required: false

- type: input
- type: textarea
id: additional_context
attributes:
label: "Additional Context"
description: "Provide any other context or information that may be helpful in answering your question."
placeholder: "Enter any additional context"
validations:
required: false
required: false
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