Pull Request №410 RosettaCommons/RFdiffusion/main ← RosettaCommons/RFdiffusion/fix_test_diffusion Merge: e22092420281c644b928e64d490044dfca4f9175←778f8d4b28f7cfd6e54c61c76ffd47de6d38bd2a Fix workflow tests that are failing ---------------- Merge commit message: Fix input_pdb path in design_macrocyclic_binder and fix incorrect call to res in test_diffusion.py

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Pull Request №410 RosettaCommons/RFdiffusion/main ← RosettaCommons/RFdiffusion/fix_test_diffusion Merge: e22092420281c644b928e64d490044dfca4f9175←f43a81d59d6999759667db97269d0fea3693c277 Fix workflow tests that are failing ---------------- Merge commit message: Changing number of designs for examples from 10 to 2 to speed up tests

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Pull Request №410 RosettaCommons/RFdiffusion/main ← RosettaCommons/RFdiffusion/fix_test_diffusion Merge: e22092420281c644b928e64d490044dfca4f9175←a45c3f9da7cfd5d3733d33d142ed8e980a7cf6b3 Fix workflow tests that are failing ---------------- Merge commit message: Fail tests when example scripts exit non-zero

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Pull Request №410 RosettaCommons/RFdiffusion/main ← RosettaCommons/RFdiffusion/fix_test_diffusion Merge: e22092420281c644b928e64d490044dfca4f9175←2d157302d341c3d8b8d8ef2e02a955d419f51e55 Fix workflow tests that are failing ---------------- Merge commit message: Adjusting command format for design_macrocyclic_binder.sh and design_macrocyclic_monomer.sh

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Pull Request №409 RosettaCommons/RFdiffusion/main ← RosettaCommons/RFdiffusion/idx_pdb_scaffoldedsampler Merge: e22092420281c644b928e64d490044dfca4f9175←caa732e2e181853acf333082136e1eb83a18cb6e Fix: Conditionally pass idx_pdb to writepdb to avoid AttributeError with SelfConditioning/ScaffoldedSampler ---------------- Merge commit message: Add conditional statement for including sampler.idx_pdb for writepdb since ScaffoldedSampler.sample_init() doesn't set idx_pdb.

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Pull Request №407 RosettaCommons/RFdiffusion/main ← RuizhiPeng/RFdiffusion/main Merge: e22092420281c644b928e64d490044dfca4f9175←5636b67f1418525067be733398157f2815a14251 Fix cyclic_reses error when doing scaffoldguided.scaffoldguided=True ---------------- Merge commit message: Delete rfdiffusion/inference/inference directory wrong upload

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Pull Request №386 RosettaCommons/RFdiffusion/main ← OrangeCatzhang/RFdiffusion/fix_scaffoldguided_design Merge: fa340147b9006156b251d1ad0391e3ea8e5f73eb←7c30fee0abf502e30b3e32c4b7a6e47c20ad74d8 Fixed issues with designing in scaffoldguided mode ---------------- Merge commit message: Fixed issues with designing in scaffoldguided mode, for example: design_ppi_scaffold.sh. The solutions to issues 272 and 273 did not fully address the issue.

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Pull Request №381 RosettaCommons/RFdiffusion/main ← RosettaCommons/RFdiffusion/fix_rfpeptides_ci Merge: fa340147b9006156b251d1ad0391e3ea8e5f73eb←637a6b7379fbb29e223a794802927897c90094f9 Fix broken CI from rfpeptides examples ---------------- Merge commit message: add python in front of macrocycle example execution

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Pull Request №365 RosettaCommons/RFdiffusion/main ← RosettaCommons/RFdiffusion/documentation_update Merge: fa340147b9006156b251d1ad0391e3ea8e5f73eb←25b908256a4949afe8391fc9827e700cb4fe5e41 Update README.md ---------------- Merge commit message: Update README.md

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Pull Request №365 RosettaCommons/RFdiffusion/main ← RosettaCommons/RFdiffusion/documentation_update Merge: fa340147b9006156b251d1ad0391e3ea8e5f73eb←35c3af8a0ac20ecf2ae550d0809edf6ba547919a Update README.md ---------------- Merge commit message: Update README.md

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Pull Request №358 RosettaCommons/RFdiffusion/main ← lyskov/RFdiffusion/main Merge: b44206a2a79f219bb1a649ea50603a284c225050←903bcadc28391694c59050d5a3d13ae82efdb69b add GitHub CI workflow for running ppi-scaffolds tests ---------------- Merge commit message: add GitHub CI workflow for running ppi-scaffolds tests (#1)

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Pull Request №357 RosettaCommons/RFdiffusion/main ← RosettaCommons/RFdiffusion/rfpeptides Merge: b44206a2a79f219bb1a649ea50603a284c225050←3ecb01f2423e90ed524a70a1bcf02a2a249a64ac RFpeptides macrocyclic peptide design ---------------- Merge commit message: Update README.md

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Pull Request №357 RosettaCommons/RFdiffusion/main ← RosettaCommons/RFdiffusion/rfpeptides Merge: b44206a2a79f219bb1a649ea50603a284c225050←140909edf2ba34a7edba4eb57a35f6d49b360d3f RFpeptides macrocyclic peptide design ---------------- Merge commit message: add .sh examples, gabarap pdb, import numpy

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Pull Request №357 RosettaCommons/RFdiffusion/main ← RosettaCommons/RFdiffusion/rfpeptides Merge: b44206a2a79f219bb1a649ea50603a284c225050←5939d4c4b008a27285297990cc766971b65be340 RFpeptides macrocyclic peptide design ---------------- Merge commit message: bugfix readme

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Pull Request №354 RosettaCommons/RFdiffusion/main ← kierannp/RFdiffusion/main Merge: b44206a2a79f219bb1a649ea50603a284c225050←0bdab9e897e28245d853a4ebcc5b73a3a3d5e2f2 Oligomer generation for translational symmetry ---------------- Merge commit message: Oligomer generation for translational symmetry

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Pull Request №348 RosettaCommons/RFdiffusion/main ← BYachnin/RFdiffusion/BYachnin/main_chain_and_res_numbering Merge: b44206a2a79f219bb1a649ea50603a284c225050←d32205a17f244757fcbe94f4658329ef9cb0459c Retain chain and residue numbering in RFdiffusion ---------------- Merge commit message: Extend available new chains to include lowercase letters Also print a warning if the user exceeds 52 chains (using up all upper- and lower-case chain ids).

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