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@fede-pe fede-pe commented Feb 14, 2025

This PR includes LaFedeTesis vol. 2 which means:

  • Protocol for detecting landmarks in TS
  • Protocol for detecting misalignment in TS
  • Update utils
  • Update coordinates by map
  • Needed changes in init and protocols.conf

This plugin depends on: I2PC/xmipp#988

@fede-pe fede-pe marked this pull request as ready for review February 18, 2025 14:09
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Why do you modify the buildPluing.yml? Is this on purpose?

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Yes, this is due to some changes in scipion_testrunner installation and execution. In theory, this might be solved once #201 is merged. Conflicts might appear when merging with devel though.

Until that PR is approved all PR in this repo are blocked since the test will not pass.

@@ -2,3 +2,5 @@ scipion-em-xmipp
scipion-em-tomo
scipion-em >= 3.0.8
scipion-em-xmippBase
pandas <= 1.3.5
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This dependence is on Scipion, I guess @oierlauzi

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@fede-pe fede-pe Mar 1, 2025

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No, there is no dependency on pandas in any of the required packages by this plugin. That's why this is added here.

{"tag": "protocol", "value": "XmippProtSplitTiltSeries", "text": "default"}
]},
{"tag": "protocol_group", "text": "CTF", "openItem": "False", "children": [
{"tag": "protocol", "value": "XmippProtRotateAstigmatism", "text": "default"}
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remove rotate astigmatism

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Done


class XmippProtDetectLandmarkTS(EMProtocol, ProtTomoBase):
"""
Scipion protocol for xmipp_tomo_detect_landmarks. Detect landmarks in a tilt series.
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add more help to explain what the protocol does, including key words to simplify the search of the protocol in the search box of scipion. For instance, including the word gold bead or fiducial

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Done

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sonarqubecloud bot commented Mar 1, 2025

@fede-pe fede-pe requested a review from Vilax March 1, 2025 16:24
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3 participants