[INFO] fetching crate pdbrust 0.7.0...
[INFO] testing pdbrust-0.7.0 against master#1f7f8ea0721a3b1eb73e6c6d25cccb371434b320 for pr-154065-1
[INFO] extracting crate pdbrust 0.7.0 into /workspace/builds/worker-0-tc1/source
[INFO] started tweaking crates.io crate pdbrust 0.7.0
[INFO] removed 0 missing examples
[INFO] removed 0 missing tests
[INFO] finished tweaking crates.io crate pdbrust 0.7.0
[INFO] tweaked toml for crates.io crate pdbrust 0.7.0 written to /workspace/builds/worker-0-tc1/source/Cargo.toml
[INFO] validating manifest of crates.io crate pdbrust 0.7.0 on toolchain 1f7f8ea0721a3b1eb73e6c6d25cccb371434b320
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+1f7f8ea0721a3b1eb73e6c6d25cccb371434b320" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] crate crates.io crate pdbrust 0.7.0 already has a lockfile, it will not be regenerated
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+1f7f8ea0721a3b1eb73e6c6d25cccb371434b320" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Updating crates.io index
[INFO] [stderr]  Downloading crates ...
[INFO] [stderr]   Downloaded codecov v0.4.0
[INFO] [stderr]   Downloaded wide v0.7.32
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[INFO] [stderr]    Compiling syn v2.0.100
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[INFO] [stdout] error[E0599]: no method named `assign_secondary_structure` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/secondary_structure_demo.rs:36:24
[INFO] [stdout]    |
[INFO] [stdout] 36 |     let ss = structure.assign_secondary_structure();
[INFO] [stdout]    |                        ^^^^^^^^^^^^^^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `secondary_structure_composition` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/secondary_structure_demo.rs:51:42
[INFO] [stdout]    |
[INFO] [stdout] 51 |     let (helix, sheet, coil) = structure.secondary_structure_composition();
[INFO] [stdout]    |                                          ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `secondary_structure_string` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/secondary_structure_demo.rs:66:31
[INFO] [stdout]    |
[INFO] [stdout] 66 |     let ss_string = structure.secondary_structure_string();
[INFO] [stdout]    |                               ^^^^^^^^^^^^^^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0432]: unresolved import `pdbrust::geometry`
[INFO] [stdout]    --> examples/lddt_demo.rs:10:14
[INFO] [stdout]     |
[INFO] [stdout]  10 | use pdbrust::geometry::{AtomSelection, LddtOptions};
[INFO] [stdout]     |              ^^^^^^^^ could not find `geometry` in `pdbrust`
[INFO] [stdout]     |
[INFO] [stdout] note: found an item that was configured out
[INFO] [stdout]    --> src/lib.rs:314:9
[INFO] [stdout]     |
[INFO] [stdout] 313 | #[cfg(feature = "geometry")]
[INFO] [stdout]     |       -------------------- the item is gated behind the `geometry` feature
[INFO] [stdout] 314 | pub mod geometry;
[INFO] [stdout]     |         ^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0432]: unresolved import `pdbrust::dockq`
[INFO] [stdout]    --> examples/dockq_validation.rs:11:14
[INFO] [stdout]     |
[INFO] [stdout]  11 | use pdbrust::dockq::{ChainMappingStrategy, DockQOptions};
[INFO] [stdout]     |              ^^^^^ could not find `dockq` in `pdbrust`
[INFO] [stdout]     |
[INFO] [stdout] note: found an item that was configured out
[INFO] [stdout]    --> src/lib.rs:323:9
[INFO] [stdout]     |
[INFO] [stdout] 322 | #[cfg(feature = "dockq")]
[INFO] [stdout]     |       ----------------- the item is gated behind the `dockq` feature
[INFO] [stdout] 323 | pub mod dockq;
[INFO] [stdout]     |         ^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] For more information about this error, try `rustc --explain E0599`.
[INFO] [stdout] 
[INFO] [stdout] error[E0433]: cannot find `summary` in `pdbrust`
[INFO] [stdout]    --> examples/analysis_workflow.rs:129:31
[INFO] [stdout]     |
[INFO] [stdout] 129 |     let csv_header = pdbrust::summary::StructureSummary::field_names().join(",");
[INFO] [stdout]     |                               ^^^^^^^ could not find `summary` in `pdbrust`
[INFO] [stdout]     |
[INFO] [stdout] note: found an item that was configured out
[INFO] [stdout]    --> src/lib.rs:308:9
[INFO] [stdout]     |
[INFO] [stdout] 307 | #[cfg(feature = "summary")]
[INFO] [stdout]     |       ------------------- the item is gated behind the `summary` feature
[INFO] [stdout] 308 | pub mod summary;
[INFO] [stdout]     |         ^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr] error: could not compile `pdbrust` (example "secondary_structure_demo") due to 3 previous errors
[INFO] [stdout] error[E0432]: unresolved import `pdbrust::geometry`
[INFO] [stdout]    --> examples/geometry_demo.rs:11:14
[INFO] [stdout]     |
[INFO] [stdout]  11 | use pdbrust::geometry::AtomSelection;
[INFO] [stdout]     |              ^^^^^^^^ could not find `geometry` in `pdbrust`
[INFO] [stdout]     |
[INFO] [stdout] note: found an item that was configured out
[INFO] [stdout]    --> src/lib.rs:314:9
[INFO] [stdout]     |
[INFO] [stdout] 313 | #[cfg(feature = "geometry")]
[INFO] [stdout]     |       -------------------- the item is gated behind the `geometry` feature
[INFO] [stdout] 314 | pub mod geometry;
[INFO] [stdout]     |         ^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr] warning: build failed, waiting for other jobs to finish...
[INFO] [stdout] error[E0432]: unresolved import `pdbrust::rcsb`
[INFO] [stdout]    --> examples/async_download_demo.rs:13:14
[INFO] [stdout]     |
[INFO] [stdout]  13 | use pdbrust::rcsb::{
[INFO] [stdout]     |              ^^^^ could not find `rcsb` in `pdbrust`
[INFO] [stdout]     |
[INFO] [stdout] note: found an item that was configured out
[INFO] [stdout]    --> src/lib.rs:311:9
[INFO] [stdout]     |
[INFO] [stdout] 310 | #[cfg(feature = "rcsb")]
[INFO] [stdout]     |       ---------------- the item is gated behind the `rcsb` feature
[INFO] [stdout] 311 | pub mod rcsb;
[INFO] [stdout]     |         ^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0433]: cannot find module or crate `tokio` in this scope
[INFO] [stdout]   --> examples/async_download_demo.rs:19:3
[INFO] [stdout]    |
[INFO] [stdout] 19 | #[tokio::main]
[INFO] [stdout]    |   ^^^^^ use of unresolved module or unlinked crate `tokio`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0752]: `main` function is not allowed to be `async`
[INFO] [stdout]   --> examples/async_download_demo.rs:20:1
[INFO] [stdout]    |
[INFO] [stdout] 20 | async fn main() -> Result<(), Box<dyn Error>> {
[INFO] [stdout]    | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ `main` function is not allowed to be `async`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `quality_report` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/analysis_workflow.rs:47:28
[INFO] [stdout]    |
[INFO] [stdout] 47 |     let report = structure.quality_report();
[INFO] [stdout]    |                            ^^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] Some errors have detailed explanations: E0432, E0433, E0752.
[INFO] [stdout] 
[INFO] [stdout] For more information about an error, try `rustc --explain E0432`.
[INFO] [stdout] 
[INFO] [stderr] error: could not compile `pdbrust` (example "async_download_demo") due to 3 previous errors
[INFO] [stdout] error[E0599]: no method named `remove_ligands` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/analysis_workflow.rs:69:29
[INFO] [stdout]    |
[INFO] [stdout] 69 |     let cleaned = structure.remove_ligands();
[INFO] [stdout]    |                             ^^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `dockq_to` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/dockq_validation.rs:39:24
[INFO] [stdout]    |
[INFO] [stdout] 39 |     let result = model.dockq_to(&native)?;
[INFO] [stdout]    |                        ^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `lddt_to` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/lddt_demo.rs:37:28
[INFO] [stdout]    |
[INFO] [stdout] 37 |     let result = reference.lddt_to(&reference)?;
[INFO] [stdout]    |                            ^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] Some errors have detailed explanations: E0433, E0599.
[INFO] [stdout] 
[INFO] [stdout] For more information about an error, try `rustc --explain E0433`.
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `dockq_to_with_options` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/dockq_validation.rs:93:24
[INFO] [stdout]    |
[INFO] [stdout] 93 |     let result = model.dockq_to_with_options(&native, options)?;
[INFO] [stdout]    |                        ^^^^^^^^^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `dockq_to` found for struct `PdbStructure` in the current scope
[INFO] [stdout]    --> examples/dockq_validation.rs:143:24
[INFO] [stdout]     |
[INFO] [stdout] 143 |     let result = model.dockq_to(&native)?;
[INFO] [stdout]     |                        ^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `lddt_to` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/lddt_demo.rs:62:29
[INFO] [stdout]    |
[INFO] [stdout] 62 |     let result = translated.lddt_to(&reference)?;
[INFO] [stdout]    |                             ^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `rmsd_to` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/lddt_demo.rs:67:27
[INFO] [stdout]    |
[INFO] [stdout] 67 |     let rmsd = translated.rmsd_to(&reference)?;
[INFO] [stdout]    |                           ^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr] error: could not compile `pdbrust` (example "analysis_workflow") due to 3 previous errors
[INFO] [stdout] error[E0599]: no method named `dockq_to_with_options` found for struct `PdbStructure` in the current scope
[INFO] [stdout]    --> examples/dockq_validation.rs:211:24
[INFO] [stdout]     |
[INFO] [stdout] 211 |     let result = model.dockq_to_with_options(&native, options)?;
[INFO] [stdout]     |                        ^^^^^^^^^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `lddt_to` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/lddt_demo.rs:88:26
[INFO] [stdout]    |
[INFO] [stdout] 88 |     let result = rotated.lddt_to(&reference)?;
[INFO] [stdout]    |                          ^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] Some errors have detailed explanations: E0432, E0599.
[INFO] [stdout] 
[INFO] [stdout] For more information about an error, try `rustc --explain E0432`.
[INFO] [stdout] 
[INFO] [stderr] error: could not compile `pdbrust` (example "dockq_validation") due to 5 previous errors
[INFO] [stdout] error[E0599]: no method named `lddt_to` found for struct `PdbStructure` in the current scope
[INFO] [stdout]    --> examples/lddt_demo.rs:105:28
[INFO] [stdout]     |
[INFO] [stdout] 105 |     let result = perturbed.lddt_to(&reference)?;
[INFO] [stdout]     |                            ^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `lddt_to_with_options` found for struct `PdbStructure` in the current scope
[INFO] [stdout]    --> examples/lddt_demo.rs:128:19
[INFO] [stdout]     |
[INFO] [stdout] 128 |         perturbed.lddt_to_with_options(&reference, AtomSelection::CaOnly, strict_options)?;
[INFO] [stdout]     |                   ^^^^^^^^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `lddt_to_with_options` found for struct `PdbStructure` in the current scope
[INFO] [stdout]    --> examples/lddt_demo.rs:136:19
[INFO] [stdout]     |
[INFO] [stdout] 136 |         perturbed.lddt_to_with_options(&reference, AtomSelection::CaOnly, small_radius)?;
[INFO] [stdout]     |                   ^^^^^^^^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `per_residue_lddt_to` found for struct `PdbStructure` in the current scope
[INFO] [stdout]    --> examples/lddt_demo.rs:149:29
[INFO] [stdout]     |
[INFO] [stdout] 149 |     let per_res = perturbed.per_residue_lddt_to(&reference)?;
[INFO] [stdout]     |                             ^^^^^^^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `rmsd_to` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/geometry_demo.rs:38:27
[INFO] [stdout]    |
[INFO] [stdout] 38 |     let rmsd = structure1.rmsd_to(&structure2)?;
[INFO] [stdout]    |                           ^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `keep_only_chain` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/filtering_demo.rs:29:29
[INFO] [stdout]    |
[INFO] [stdout] 29 |     let chain_a = structure.keep_only_chain("A");
[INFO] [stdout]    |                             ^^^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `lddt_to` found for struct `PdbStructure` in the current scope
[INFO] [stdout]    --> examples/lddt_demo.rs:181:41
[INFO] [stdout]     |
[INFO] [stdout] 181 |     let lddt_result = heavily_perturbed.lddt_to(&reference)?;
[INFO] [stdout]     |                                         ^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `keep_only_ca` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/filtering_demo.rs:36:29
[INFO] [stdout]    |
[INFO] [stdout] 36 |     let ca_only = structure.keep_only_ca();
[INFO] [stdout]    |                             ^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `keep_only_backbone` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/filtering_demo.rs:40:30
[INFO] [stdout]    |
[INFO] [stdout] 40 |     let backbone = structure.keep_only_backbone();
[INFO] [stdout]    |                              ^^^^^^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `rmsd_to_with_selection` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/geometry_demo.rs:46:30
[INFO] [stdout]    |
[INFO] [stdout] 46 |     let rmsd_ca = structure1.rmsd_to_with_selection(&structure2, AtomSelection::CaOnly)?;
[INFO] [stdout]    |                              ^^^^^^^^^^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `rmsd_to` found for struct `PdbStructure` in the current scope
[INFO] [stdout]    --> examples/lddt_demo.rs:182:41
[INFO] [stdout]     |
[INFO] [stdout] 182 |     let rmsd_direct = heavily_perturbed.rmsd_to(&reference)?;
[INFO] [stdout]     |                                         ^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `get_ca_coords` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/filtering_demo.rs:47:31
[INFO] [stdout]    |
[INFO] [stdout] 47 |     let ca_coords = structure.get_ca_coords(None);
[INFO] [stdout]    |                               ^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `get_ca_coords` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/filtering_demo.rs:51:39
[INFO] [stdout]    |
[INFO] [stdout] 51 |     let chain_a_ca_coords = structure.get_ca_coords(Some("A"));
[INFO] [stdout]    |                                       ^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `remove_ligands` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/filtering_demo.rs:58:32
[INFO] [stdout]    |
[INFO] [stdout] 58 |     let no_ligands = structure.remove_ligands();
[INFO] [stdout]    |                                ^^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `rmsd_to_with_selection` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/geometry_demo.rs:50:30
[INFO] [stdout]    |
[INFO] [stdout] 50 |     let rmsd_bb = structure1.rmsd_to_with_selection(&structure2, AtomSelection::Backbone)?;
[INFO] [stdout]    |                              ^^^^^^^^^^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `align_to` found for struct `PdbStructure` in the current scope
[INFO] [stdout]    --> examples/lddt_demo.rs:183:49
[INFO] [stdout]     |
[INFO] [stdout] 183 |     let (_, aligned_result) = heavily_perturbed.align_to(&reference)?;
[INFO] [stdout]     |                                                 ^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout] help: there is a method `into` with a similar name, but with different arguments
[INFO] [stdout]    --> /rustc/1f7f8ea0721a3b1eb73e6c6d25cccb371434b320/library/core/src/convert/mod.rs:455:4
[INFO] [stdout] help: some of the expressions' fields have a method of the same name
[INFO] [stdout]     |
[INFO] [stdout] 183 |     let (_, aligned_result) = heavily_perturbed.atoms.align_to(&reference)?;
[INFO] [stdout]     |                                                 ++++++
[INFO] [stdout] 183 |     let (_, aligned_result) = heavily_perturbed.connects.align_to(&reference)?;
[INFO] [stdout]     |                                                 +++++++++
[INFO] [stdout] 183 |     let (_, aligned_result) = heavily_perturbed.models.align_to(&reference)?;
[INFO] [stdout]     |                                                 +++++++
[INFO] [stdout] 183 |     let (_, aligned_result) = heavily_perturbed.remarks.align_to(&reference)?;
[INFO] [stdout]     |                                                 ++++++++
[INFO] [stdout]     = and 2 other candidates
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `remove_hydrogens` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/filtering_demo.rs:66:34
[INFO] [stdout]    |
[INFO] [stdout] 66 |     let no_hydrogens = structure.remove_hydrogens();
[INFO] [stdout]    |                                  ^^^^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `rmsd_to_with_selection` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/geometry_demo.rs:54:31
[INFO] [stdout]    |
[INFO] [stdout] 54 |     let rmsd_all = structure1.rmsd_to_with_selection(&structure2, AtomSelection::AllAtoms)?;
[INFO] [stdout]    |                               ^^^^^^^^^^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `remove_ligands` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/filtering_demo.rs:78:10
[INFO] [stdout]    |
[INFO] [stdout] 77 |       let cleaned = structure
[INFO] [stdout]    |  ___________________-
[INFO] [stdout] 78 | |         .remove_ligands()
[INFO] [stdout]    | |         -^^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout]    | |_________|
[INFO] [stdout]    |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `lddt_to_with_options` found for struct `PdbStructure` in the current scope
[INFO] [stdout]    --> examples/lddt_demo.rs:196:29
[INFO] [stdout]     |
[INFO] [stdout] 196 |     let lddt_ca = reference.lddt_to_with_options(
[INFO] [stdout]     |                   ----------^^^^^^^^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `remove_ligands` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/filtering_demo.rs:87:29
[INFO] [stdout]    |
[INFO] [stdout] 87 |     let ca_repr = structure.remove_ligands().keep_only_ca();
[INFO] [stdout]    |                             ^^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `rmsd_to_with_selection` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/geometry_demo.rs:58:34
[INFO] [stdout]    |
[INFO] [stdout] 58 |     let rmsd_custom = structure1.rmsd_to_with_selection(
[INFO] [stdout]    |                       -----------^^^^^^^^^^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `get_centroid` found for struct `PdbStructure` in the current scope
[INFO] [stdout]    --> examples/filtering_demo.rs:100:32
[INFO] [stdout]     |
[INFO] [stdout] 100 |     let (cx, cy, cz) = mutable.get_centroid();
[INFO] [stdout]     |                                ^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `lddt_to_with_options` found for struct `PdbStructure` in the current scope
[INFO] [stdout]    --> examples/lddt_demo.rs:201:29
[INFO] [stdout]     |
[INFO] [stdout] 201 |     let lddt_bb = reference.lddt_to_with_options(
[INFO] [stdout]     |                   ----------^^^^^^^^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `align_to` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/geometry_demo.rs:69:40
[INFO] [stdout]    |
[INFO] [stdout] 69 |     let (aligned, result) = structure1.align_to(&structure2)?;
[INFO] [stdout]    |                                        ^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout] help: there is a method `into` with a similar name, but with different arguments
[INFO] [stdout]   --> /rustc/1f7f8ea0721a3b1eb73e6c6d25cccb371434b320/library/core/src/convert/mod.rs:455:4
[INFO] [stdout] help: some of the expressions' fields have a method of the same name
[INFO] [stdout]    |
[INFO] [stdout] 69 |     let (aligned, result) = structure1.atoms.align_to(&structure2)?;
[INFO] [stdout]    |                                        ++++++
[INFO] [stdout] 69 |     let (aligned, result) = structure1.connects.align_to(&structure2)?;
[INFO] [stdout]    |                                        +++++++++
[INFO] [stdout] 69 |     let (aligned, result) = structure1.models.align_to(&structure2)?;
[INFO] [stdout]    |                                        +++++++
[INFO] [stdout] 69 |     let (aligned, result) = structure1.remarks.align_to(&structure2)?;
[INFO] [stdout]    |                                        ++++++++
[INFO] [stdout]    = and 2 other candidates
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `center_structure` found for struct `PdbStructure` in the current scope
[INFO] [stdout]    --> examples/filtering_demo.rs:104:13
[INFO] [stdout]     |
[INFO] [stdout] 104 |     mutable.center_structure();
[INFO] [stdout]     |             ^^^^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `get_centroid` found for struct `PdbStructure` in the current scope
[INFO] [stdout]    --> examples/filtering_demo.rs:105:32
[INFO] [stdout]     |
[INFO] [stdout] 105 |     let (cx, cy, cz) = mutable.get_centroid();
[INFO] [stdout]     |                                ^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `align_to_with_selection` found for struct `PdbStructure` in the current scope
[INFO] [stdout]   --> examples/geometry_demo.rs:79:20
[INFO] [stdout]    |
[INFO] [stdout] 79 |         structure1.align_to_with_selection(&structure2, AtomSelection::Backbone)?;
[INFO] [stdout]    |                    ^^^^^^^^^^^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `renumber_atoms` found for struct `PdbStructure` in the current scope
[INFO] [stdout]    --> examples/filtering_demo.rs:109:13
[INFO] [stdout]     |
[INFO] [stdout] 109 |     mutable.renumber_atoms();
[INFO] [stdout]     |             ^^^^^^^^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] Some errors have detailed explanations: E0432, E0599.
[INFO] [stdout] 
[INFO] [stdout] For more information about an error, try `rustc --explain E0432`.
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `normalize_chain_ids` found for struct `PdbStructure` in the current scope
[INFO] [stdout]    --> examples/filtering_demo.rs:118:17
[INFO] [stdout]     |
[INFO] [stdout] 118 |     multi_chain.normalize_chain_ids();
[INFO] [stdout]     |                 ^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout] help: there is a method `get_chain_ids` with a similar name
[INFO] [stdout]     |
[INFO] [stdout] 118 -     multi_chain.normalize_chain_ids();
[INFO] [stdout] 118 +     multi_chain.get_chain_ids();
[INFO] [stdout]     |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr] error: could not compile `pdbrust` (example "lddt_demo") due to 14 previous errors
[INFO] [stdout] error[E0599]: no method named `reindex_residues` found for struct `PdbStructure` in the current scope
[INFO] [stdout]    --> examples/filtering_demo.rs:123:15
[INFO] [stdout]     |
[INFO] [stdout] 123 |     reindexed.reindex_residues();
[INFO] [stdout]     |               ^^^^^^^^^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout] help: there is a method `get_residues` with a similar name
[INFO] [stdout]     |
[INFO] [stdout] 123 -     reindexed.reindex_residues();
[INFO] [stdout] 123 +     reindexed.get_residues();
[INFO] [stdout]     |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `per_residue_rmsd_to` found for struct `PdbStructure` in the current scope
[INFO] [stdout]    --> examples/geometry_demo.rs:89:30
[INFO] [stdout]     |
[INFO] [stdout]  89 |     let per_res = structure1.per_residue_rmsd_to(&structure2)?;
[INFO] [stdout]     |                              ^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout] help: there is a method `get_residues` with a similar name, but with different arguments
[INFO] [stdout]    --> src/core/pdb.rs:231:5
[INFO] [stdout]     |
[INFO] [stdout] 231 |     pub fn get_residues(&self) -> Vec<(i32, String)> {
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] For more information about this error, try `rustc --explain E0599`.
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `rmsd_to` found for struct `PdbStructure` in the current scope
[INFO] [stdout]    --> examples/geometry_demo.rs:134:32
[INFO] [stdout]     |
[INFO] [stdout] 134 |     let self_rmsd = structure1.rmsd_to(&structure1)?;
[INFO] [stdout]     |                                ^^^^^^^ method not found in `PdbStructure`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `align_to` found for struct `PdbStructure` in the current scope
[INFO] [stdout]    --> examples/geometry_demo.rs:137:39
[INFO] [stdout]     |
[INFO] [stdout] 137 |     let (_, self_result) = structure1.align_to(&structure1)?;
[INFO] [stdout]     |                                       ^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout] help: there is a method `into` with a similar name, but with different arguments
[INFO] [stdout]    --> /rustc/1f7f8ea0721a3b1eb73e6c6d25cccb371434b320/library/core/src/convert/mod.rs:455:4
[INFO] [stdout] help: some of the expressions' fields have a method of the same name
[INFO] [stdout]     |
[INFO] [stdout] 137 |     let (_, self_result) = structure1.atoms.align_to(&structure1)?;
[INFO] [stdout]     |                                       ++++++
[INFO] [stdout] 137 |     let (_, self_result) = structure1.connects.align_to(&structure1)?;
[INFO] [stdout]     |                                       +++++++++
[INFO] [stdout] 137 |     let (_, self_result) = structure1.models.align_to(&structure1)?;
[INFO] [stdout]     |                                       +++++++
[INFO] [stdout] 137 |     let (_, self_result) = structure1.remarks.align_to(&structure1)?;
[INFO] [stdout]     |                                       ++++++++
[INFO] [stdout]     = and 2 other candidates
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr] error: could not compile `pdbrust` (example "filtering_demo") due to 15 previous errors
[INFO] [stdout] Some errors have detailed explanations: E0432, E0599.
[INFO] [stdout] 
[INFO] [stdout] For more information about an error, try `rustc --explain E0432`.
[INFO] [stdout] 
[INFO] [stderr] error: could not compile `pdbrust` (example "geometry_demo") due to 11 previous errors
[INFO] running `Command { std: "docker" "inspect" "f4f766aba5f11fc8d32695000e678d60b45a0bf7ee3634e7432f07a83bf35af7", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "f4f766aba5f11fc8d32695000e678d60b45a0bf7ee3634e7432f07a83bf35af7", kill_on_drop: false }`
[INFO] [stdout] f4f766aba5f11fc8d32695000e678d60b45a0bf7ee3634e7432f07a83bf35af7
