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jgreener64 committed Sep 28, 2020
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11 changes: 0 additions & 11 deletions .github/PULL_REQUEST_TEMPLATE.md
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Expand Up @@ -34,14 +34,3 @@ _(Please tick any or all of the following that are applicable)_
- If you are implementing changes that are intended to increase performance, you
should provide the results of a simple performance benchmark exercise
demonstrating the improvement. Especially if the changes make code less legible.

## :ballot_box_with_check: Checklist

- [ ] :art: The changes implemented is consistent with the [julia style guide](https://docs.julialang.org/en/stable/manual/style-guide/).
- [ ] :blue_book: I have updated and added relevant docstrings, in a manner consistent with the [documentation styleguide](https://docs.julialang.org/en/stable/manual/documentation/).
- [ ] :blue_book: I have added or updated relevant user and developer manuals/documentation in `docs/src/`.
- [ ] :ok: There are unit tests that cover the code changes I have made.
- [ ] :ok: The unit tests cover my code changes AND they pass.
- [ ] :pencil: I have added an entry to the `[UNRELEASED]` section of the manually curated `CHANGELOG.md` file for this repository.
- [ ] :ok: All changes should be compatible with the latest stable version of Julia.
- [ ] :thought_balloon: I have commented liberally for any complex pieces of internal code.
4 changes: 4 additions & 0 deletions NEWS.md
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BioStructures.jl release notes
==============================

## v0.11.3 - Sep 2020

* Gzip support is added for reading and writing mmCIF files via the `gzip` keyword argument.

## v0.11.2 - Sep 2020

* Add `get` method for `MMCIFDict`.
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2 changes: 1 addition & 1 deletion Project.toml
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name = "BioStructures"
uuid = "de9282ab-8554-53be-b2d6-f6c222edabfc"
authors = ["Joe G Greener <[email protected]>"]
version = "0.11.2"
version = "0.11.3"

[deps]
BioAlignments = "00701ae9-d1dc-5365-b64a-a3a3ebf5695e"
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4 changes: 2 additions & 2 deletions docs/src/documentation.md
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Expand Up @@ -461,7 +461,7 @@ Various options can be set through optional keyword arguments when parsing PDB/m
| `remove_disorder::Bool=false` | Whether to remove atoms with alt loc ID not ' ' or 'A' |
| `read_std_atoms::Bool=true` | Whether to read standard ATOM records |
| `read_het_atoms::Bool=true` | Whether to read HETATOM records |
| `gzip::Bool=false` | Whether the file is gzipped (MMTF and MMCIF files only) |
| `gzip::Bool=false` | Whether the file is gzipped (MMTF and mmCIF files only) |

Use [`retrievepdb`](@ref) to download and parse a PDB file into a Structure-Model-Chain-Residue-Atom framework in a single line:

Expand Down Expand Up @@ -517,8 +517,8 @@ writepdb("1EN2_out.pdb", struc, backboneselector)
```

To write mmCIF format files, use the [`writemmcif`](@ref) function with similar arguments.
A [`MMCIFDict`](@ref) can also be written using [`writemmcif`](@ref):
The `gzip` keyword argument, default `false`, determines whether to gzip the written file.
A [`MMCIFDict`](@ref) can also be written using [`writemmcif`](@ref):

```julia
writemmcif("1EN2_out.dic", mmcif_dict)
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2 changes: 1 addition & 1 deletion test/runtests.jl
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Expand Up @@ -5,12 +5,12 @@ using Test
using BioAlignments
using BioSequences
import BioCore # Imported to avoid clash with BioGenerics distance
using CodecZlib
using DataFrames
using Format
using LightGraphs
using MetaGraphs
using RecipesBase
using CodecZlib

using BioStructures
using BioStructures:
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Registration pull request created: JuliaRegistries/General/22112

After the above pull request is merged, it is recommended that a tag is created on this repository for the registered package version.

This will be done automatically if the Julia TagBot GitHub Action is installed, or can be done manually through the github interface, or via:

git tag -a v0.11.3 -m "<description of version>" 996de9a4348115e5770dfc65ce61dc5226caa2b4
git push origin v0.11.3

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