From 53c60a22b563dcaf575904b074e5533f5825a3f6 Mon Sep 17 00:00:00 2001 From: Lukas Winkler Date: Tue, 27 Jun 2023 22:38:59 +0200 Subject: [PATCH] many minor changes --- .gitignore | 1 + paperlibrary/api/api.py | 25 +- paperlibrary/api/models.py | 19 +- paperlibrary/library/library.py | 56 +++- paperlibrary/pap.py | 9 +- poetry.lock | 506 +++++++++++++++++++++----------- pyproject.toml | 9 +- 7 files changed, 436 insertions(+), 189 deletions(-) diff --git a/.gitignore b/.gitignore index 73b9618..16b5ba7 100644 --- a/.gitignore +++ b/.gitignore @@ -2,3 +2,4 @@ __pycache__/ library/ !paperlibrary/library +*.bak diff --git a/paperlibrary/api/api.py b/paperlibrary/api/api.py index b47a9a3..4f87a47 100644 --- a/paperlibrary/api/api.py +++ b/paperlibrary/api/api.py @@ -1,9 +1,10 @@ +from functools import lru_cache from pathlib import Path from typing import List, Dict from requests import Session -from paperlibrary.api.models import Author, PDF, Keyword, PaperComplete +from paperlibrary.api.models import Author, PDF, Keyword, PaperComplete, Note class PaperLibraryAPI: @@ -14,18 +15,25 @@ class PaperLibraryAPI: self.s = Session() self.s.headers.update({"Authorization": "Token " + auth_token}) + @lru_cache def fetch_papers(self) -> List[PaperComplete]: r = self.s.get(self.baseURL + "papers/") + r.raise_for_status() return PaperComplete.schema().loads(r.text, many=True) + @lru_cache def fetch_authors(self) -> List[Author]: r = self.s.get(self.baseURL + "authors/") + r.raise_for_status() return Author.schema().loads(r.text, many=True) + @lru_cache def fetch_keywords(self) -> List[Keyword]: r = self.s.get(self.baseURL + "keywords/") + r.raise_for_status() return Keyword.schema().loads(r.text, many=True) + @lru_cache def fetch_papers_by_year(self) -> Dict[int, List[PaperComplete]]: papers = self.fetch_papers() years: Dict[int, List[PaperComplete]] = {} @@ -36,12 +44,16 @@ class PaperLibraryAPI: years[paper.year] = [paper] return years + @lru_cache def fetch_bibliography(self) -> str: r = self.s.get(self.baseURL + "bibtex/") + r.raise_for_status() return r.text + @lru_cache def fetch_pdfs(self) -> List[PDF]: r = self.s.get(self.baseURL + "pdfs/") + r.raise_for_status() return PDF.schema().loads(r.text, many=True) def upload_pdf(self, pdf, file: Path) -> PDF: @@ -49,4 +61,15 @@ class PaperLibraryAPI: r = self.s.put(pdf.url, files={ "file": f, }) + r.raise_for_status() return PDF.schema().loads(r.text) + + def update_note(self, id: int, file_text: str) -> None: + r = self.s.put(self.baseURL + f"notes/{id}/", json={"paper": id, "text_md": file_text}) + r.raise_for_status() + return Note.schema().loads(r.text) + + def create_note(self, id: int, file_text: str) -> None: + r = self.s.post(self.baseURL + f"notes/", json={"paper": id, "text_md": file_text}) + r.raise_for_status() + return Note.schema().loads(r.text) diff --git a/paperlibrary/api/models.py b/paperlibrary/api/models.py index cb3d563..e2ca9ca 100644 --- a/paperlibrary/api/models.py +++ b/paperlibrary/api/models.py @@ -25,7 +25,7 @@ class PDF(DataClassJsonMixin): @dataclass class Paper(DataClassJsonMixin): - # id: int + id: int url: str title: str custom_title: str @@ -47,6 +47,8 @@ class PaperComplete(Paper): publication: str doctype: str arxiv_id: Optional[str] + arxiv_class: Optional[str] + ads_version: Optional[int] bibcode: Optional[str] year: int pubdate: str # TODO: to datetime @@ -56,12 +58,14 @@ class PaperComplete(Paper): recommended_by: List[str] tags: List[str] custom_title: str - notes_md: str - notes_html: str + notes_md: Optional[str] + notes_html: Optional[str] + notes_updated_at: Optional[str] @dataclass class Author(DataClassJsonMixin): + id: int url: str papers: List[Paper] name: str @@ -76,7 +80,16 @@ class Author(DataClassJsonMixin): @dataclass class Keyword(DataClassJsonMixin): + id: int url: str papers: List[Paper] name: str kw_schema: str + + +@dataclass +class Note(DataClassJsonMixin): + paper: int + text_md: str + text_html: str + updated_at: str diff --git a/paperlibrary/library/library.py b/paperlibrary/library/library.py index 9c1c25c..a4cf26e 100644 --- a/paperlibrary/library/library.py +++ b/paperlibrary/library/library.py @@ -1,7 +1,7 @@ import hashlib import os import shutil -from datetime import datetime +from datetime import datetime, timezone from pathlib import Path from alive_progress import alive_bar @@ -27,9 +27,15 @@ def link_file(pdf_dir: Path, directory: Path, paper: Paper, filename: str = None if filename is None: filename = paper.title + notes_dir = pdf_dir.parent / "notes" + notes_file = notes_dir / f"{paper.id}.md" + meta_dir = pdf_dir.parent / "meta" + meta_file = meta_dir / f"{paper.id}.json" sourcefile = pdf_dir / f"{paper.main_pdf.id}.pdf" targetfile = directory / "{}.pdf".format(format_filename(filename)) targetfile.symlink_to(sourcefile) + targetfile.with_suffix(".md").symlink_to(notes_file) + targetfile.with_suffix(".json").symlink_to(meta_file) def write_symlinks(api: PaperLibraryAPI, config: Config): @@ -40,11 +46,12 @@ def write_symlinks(api: PaperLibraryAPI, config: Config): author_dir = basedir / "by_author" keyword_dir = basedir / "by_keyword" year_dir = basedir / "by_year" + tags_dir = basedir / "by_tags" title_dir = basedir / "by_title" custom_title_dir = basedir / "by_custom_title" citation_key_dir = basedir / "by_citation_key" - for directory in [author_dir, keyword_dir, year_dir, title_dir, custom_title_dir, citation_key_dir]: + for directory in [author_dir, keyword_dir, year_dir, title_dir, tags_dir, custom_title_dir, citation_key_dir]: shutil.rmtree(directory, ignore_errors=True) directory.mkdir() @@ -60,12 +67,16 @@ def write_symlinks(api: PaperLibraryAPI, config: Config): if not keyword.papers: continue keyword_subdir = keyword_dir / format_filename(keyword.name) - keyword_subdir.mkdir() + keyword_subdir.mkdir(exist_ok=True) for paper in keyword.papers: link_file(pdf_dir, keyword_subdir, paper) for paper in api.fetch_papers(): link_file(pdf_dir, title_dir, paper, paper.title) + for tag in paper.tags: + tag_dir = tags_dir / tag + tag_dir.mkdir(exist_ok=True, parents=True) + link_file(pdf_dir, tag_dir, paper, paper.title) if not paper.custom_title: continue @@ -126,6 +137,45 @@ def update_pdfs(api: PaperLibraryAPI, config: Config): download_file(api, pdf.file, pdf_file) +def update_meta(api: PaperLibraryAPI, config: Config): + meta_dir = config.basedir_path / "meta" + meta_dir.mkdir(exist_ok=True) + for paper in api.fetch_papers(): + with (meta_dir / f"{paper.id}.json").open("w") as f: + f.write(paper.to_json(indent=2, ensure_ascii=False)) + + +def update_notes(api: PaperLibraryAPI, config: Config): + notes_dir = config.basedir_path / "notes" + notes_dir.mkdir(exist_ok=True) + + for paper in api.fetch_papers(): + if paper.notes_md is None: + paper.notes_md = "" + notes_file = notes_dir / f"{paper.id}.md" + if not notes_file.exists(): + notes_file.write_text(paper.notes_md) + continue + + file_text = notes_file.read_text() + if file_text == paper.notes_md: + continue + print(repr(file_text), repr(paper.notes_md)) + if paper.notes_updated_at is None: + api.create_note(paper.id, file_text) + continue + online_change_date = datetime.fromisoformat(paper.notes_updated_at) + local_change_date = datetime.fromtimestamp(notes_file.stat().st_mtime, tz=timezone.utc) + print(online_change_date, local_change_date) + print(local_change_date - online_change_date) + if online_change_date > local_change_date: + print("fetching from online") + notes_file.write_text(paper.notes_md) + continue + print("updating online") + api.update_note(paper.id, file_text) + + def write_bibliography(api: PaperLibraryAPI, config: Config): bib = api.fetch_bibliography() target_file = config.basedir_path / "bibliography.bib" diff --git a/paperlibrary/pap.py b/paperlibrary/pap.py index b4941f1..bfd728c 100644 --- a/paperlibrary/pap.py +++ b/paperlibrary/pap.py @@ -1,11 +1,12 @@ import click +from click_default_group import DefaultGroup from paperlibrary.api import PaperLibraryAPI from paperlibrary.config import get_config, Config, save_config, config_check -from paperlibrary.library import write_symlinks, update_pdfs, write_bibliography +from paperlibrary.library import write_symlinks, update_pdfs, write_bibliography, update_notes, update_meta -@click.group() +@click.group(cls=DefaultGroup, default="update",default_if_no_args=True) @click.pass_context def cli(ctx): ctx.obj = get_config() @@ -18,8 +19,10 @@ def update(config: Config): config_check(config) api = PaperLibraryAPI(config.url, auth_token=config.auth_token) write_bibliography(api, config) - 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