179 lines
6.4 KiB
Python
179 lines
6.4 KiB
Python
import os
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import argparse
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# from subprocess import Popen, PIPE, STDOUT
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# from pipes import quote as shell_quote
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import fitz
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from pubs.plugins import PapersPlugin
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from pubs.events import DocAddEvent, NoteEvent
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from pubs import repo
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from pubs.utils import resolve_citekey_list
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from pubs.content import check_file, read_text_file, write_file
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class ExtractPlugin(PapersPlugin):
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"""Make the pubs repository also a git repository.
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The git plugin creates a git repository in the pubs directory
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and commit the changes to the pubs repository.
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It also add the `pubs git` subcommand, so git commands can be executed
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in the git repository from the command line.
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"""
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name = "extract"
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description = "Extract annotations from pubs documents"
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def __init__(self, conf, ui):
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self.ui = ui
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self.conf = conf
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self.repository = repo.Repository(conf)
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self.pubsdir = os.path.expanduser(conf["main"]["pubsdir"])
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self.broker = self.repository.databroker
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# TODO implement custom annotation formatting, akin to main config citekey format
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# e.g. `> [{page}] {annotation}`
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# or `:: {annotation} :: {page} ::`
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# and so on
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self.onimport = conf["plugins"].get("extract", {}).get("onimport", False)
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# self.manual = conf['plugins'].get('git', {}).get('manual', False)
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# self.force_color = conf['plugins'].get('git', {}).get('force_color', True)
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# self.list_of_changes = []
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def update_parser(self, subparsers, conf):
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"""Allow the usage of the pubs git subcommand"""
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# TODO option for ignoring missing documents or erroring.
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extract_parser = subparsers.add_parser(self.name, help=self.description)
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extract_parser.add_argument(
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"citekeys",
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nargs=argparse.REMAINDER,
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help="citekey(s) of the documents to extract from",
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)
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extract_parser.add_argument(
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"-w",
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"--write",
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help="Write to individual notes instead of standard out. Appends to existing notes.",
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action="store_true",
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default=None,
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)
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extract_parser.add_argument(
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"-e",
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"--edit",
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help="Open each note in editor for manual editing after extracting annotations to it.",
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action="store_true",
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default=False,
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)
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extract_parser.set_defaults(func=self.command)
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def command(self, conf, args):
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"""Run the annotation extraction"""
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citekeys = resolve_citekey_list(
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self.repository, conf, args.citekeys, ui=self.ui, exit_on_fail=True
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)
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if not citekeys:
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return
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all_annotations = self.extract(citekeys)
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if args.write:
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self._to_notes(all_annotations, conf["main"]["note_extension"], args.edit)
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else:
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self._to_stdout(all_annotations)
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self.repository.close()
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def extract(self, citekeys):
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papers = self._gather_papers(citekeys)
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papers_annotated = []
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for paper in papers:
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file = self._get_file(paper)
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try:
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papers_annotated.append((paper, self._get_annotations(file)))
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except fitz.FileDataError as e:
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self.ui.error(f"Document {file} is broken: {e}")
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return papers_annotated
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def _gather_papers(self, citekeys):
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papers = []
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for key in citekeys:
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papers.append(self.repository.pull_paper(key))
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return papers
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def _get_file(self, paper):
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path = self.broker.real_docpath(paper.docpath)
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if not path:
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self.ui.warning(f"{paper.citekey} has no valid document.")
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return path
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def _get_annotations(self, filename):
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annotations = []
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with fitz.Document(filename) as doc:
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for page in doc:
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for annot in page.annots():
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content = annot.get_text() or annot.info["content"].replace(
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"\n", ""
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)
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if content:
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annotations.append(f"[{page.number}] {content}")
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return annotations
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def _to_stdout(self, annotated_papers):
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output = ""
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for contents in annotated_papers:
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paper = contents[0]
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annotations = contents[1]
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if annotations:
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output += f"{paper.citekey}\n"
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for annot in annotations:
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output += f'> "{annot}"\n'
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output += "\n"
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print(output)
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def _to_notes(self, annotated_papers, note_extension="txt", edit=False):
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for contents in annotated_papers:
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paper = contents[0]
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annotations = contents[1]
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if annotations:
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notepath = self.broker.real_notepath(paper.citekey, note_extension)
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if check_file(notepath, fail=False):
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self._append_to_note(notepath, annotations)
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else:
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self._write_new_note(notepath, annotations)
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if edit is True:
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self.ui.edit_file(notepath, temporary=False)
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NoteEvent(paper.citekey).send()
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def _write_new_note(self, notepath, annotations):
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output = "# Annotations\n\n"
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for annotation in annotations:
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output += f"> {annotation}\n\n"
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write_file(notepath, output, "w")
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def _append_to_note(self, notepath, annotations):
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"""Append new annotations to the end of a note.
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Looks through note to determine any new annotations which should be
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added and adds them to the end of the note file.
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"""
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existing = read_text_file(notepath)
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# removed annotations already found in the note
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existing_dropped = [x for x in annotations if x not in existing]
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if not existing_dropped:
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return
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output = ""
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for annotation in existing_dropped:
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output += f"> {annotation}\n\n"
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write_file(notepath, output, "a")
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@DocAddEvent.listen()
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def modify_event(event):
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if ExtractPlugin.is_loaded():
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plg = ExtractPlugin.get_instance()
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if plg.onimport:
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all_annotations = plg.extract([event.citekey])
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if all_annotations[0][1]:
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plg._to_notes(all_annotations, plg.conf["main"]["note_extension"])
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plg.ui.info(f"Imported {event.citekey} annotations.")
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