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Update quick_start_6bno.ipynb Sync to Compact Branch #158: Commit 55e9d11 pushed by yingyue2030699
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Add geometry conventions Sync to Compact Branch #157: Commit 4c12b5e pushed by yingyue2030699
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Merge pull request #105 from JohnsonBiophysicsLab/yingyue2030699-patch-2 Sync to Compact Branch #156: Commit 9ec8468 pushed by yingyue2030699
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Added bondedComplexWrite immediately under restartWrite Sync to Compact Branch #155: Commit 1a6cf4c pushed by yingyue2030699
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Fix failing tests Sync to Compact Branch #154: Commit 99d985d pushed by yingyue2030699
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Fix FP and DC statuses to not longer skip output Sync to Compact Branch #153: Commit c2aba8d pushed by yingyue2030699
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Update FP to 0 and 1 chains Sync to Compact Branch #152: Commit 6bfec26 pushed by yingyue2030699
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Fix 7djq/7df1 Sync to Compact Branch #151: Commit b22e3af pushed by yingyue2030699
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Add more detailed failure statuses Sync to Compact Branch #150: Commit a793918 pushed by yingyue2030699
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Add structure JSON parsing from NERDSS Sync to Compact Branch #149: Commit b3c7fe2 pushed by yingyue2030699
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Update README with conda isolated environment installation instructions Sync to Compact Branch #148: Commit c4eebdd pushed by smriti2000
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Update README with NERDSS installation info Sync to Compact Branch #147: Commit 92fa704 pushed by smriti2000
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Add a preflight network check to error out with disconnected subunits Sync to Compact Branch #146: Commit 73c7100 pushed by yingyue2030699
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Update structure validation to apply to Sync to Compact Branch #145: Commit a027be6 pushed by yingyue2030699
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Completely disable PSF file based parsing Sync to Compact Branch #144: Commit c02f79d pushed by yingyue2030699
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When psf based method does not work fall back to restart file only pa… Sync to Compact Branch #143: Commit f845f71 pushed by yingyue2030699
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Update troubleshoot_homomer.ipynb Sync to Compact Branch #142: Commit a56a6f0 pushed by yingyue2030699
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Update troubleshoot_homomer.ipynb Sync to Compact Branch #141: Commit bee4f2f pushed by yingyue2030699
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update troubleshoots Sync to Compact Branch #140: Commit bc4f87d pushed by yingyue2030699
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Update tests for hht accordingly Sync to Compact Branch #139: Commit e35e36f pushed by yingyue2030699
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Update pyproject.toml Sync to Compact Branch #138: Commit d08a7cc pushed by yingyue2030699
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Patch template to try both ij and ji during homotypic heterotypic ass… Sync to Compact Branch #137: Commit e1f4b08 pushed by yingyue2030699
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update restart parser Sync to Compact Branch #136: Commit 136960b pushed by yingyue2030699
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Update validation logic to first parse all RESTARTs Sync to Compact Branch #135: Commit 8ddcb24 pushed by yingyue2030699
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add gif loop as a user kwarg for visualize_trajectory_ovito() Sync to Compact Branch #134: Commit c552650 pushed by PhysFoley
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