cit2pmid - find candidate NCBI PubMed identifiers for a
citation
cit2pmid [-debug] [-strict]
[-remote|-eutils|-local|-exact|-verify]
[-asn file|-cit file]
[-title|-TITL str]
[-author|-FAUT|-LAUT str]
[-journal|-JOUR str]
[-year|-YEAR|-PDAT str]
[-volume|-VOL str]
[-issue|-ISS str]
[-page[s]|-PAGE str]
cit2pmid tries to identify NCBI PubMed identifiers corresponding
to a supplied citation. Some modes search an indexed local NCBI PubMed
archive (as prepared by index-pubmed(1)).
- -debug
- Trace some aspects of execution.
- -strict
- Perform stricter matching (only in -local mode, at least for
now).
- -remote
- Use nquire -citmatch remote service (default).
- -eutils
- Use esearch remote service.
- -local
- Use transmute -r2p (ref2pmid) for relaxed search with local
archive.
- -exact
- Use phrase-search for strict matching with local archive.
- -verify
- Query against local archive with strict (but not -exact) matching
then confirm positive candidates via citmatch.
- -asn file
- Read NCBI Pub ASN.1 from file (- for standard input).
Must be the only query specification.
- -cit file
- Read CITATION XML from file (- for standard input).
Must be the only query specification.
- -title|-TITL str
- Article title; may need other fields to disambiguate, especially if
incomplete.
- -author str
- Author name (last name, optionally followed by initials); may appear
twice, for first and last authors. (Otherwise, taken to be first author
only.)
- -FAUT str
- Explicitly name first author.
- -LAUT str
- Explicitly name last author.
- -journal|-JOUR str
- Journal name.
- -year|-YEAR|-PDAT str
- Publication year.
- -volume|-VOL str
- Journal volume.
- -issue|-ISS str
- Journal issue.
- -page[s]|-PAGE str
- Journal page, or hyphenated range.
- EDIRECT_PUBMED_MASTER
- Local archive directory to use. Expected to hold an absolute path;
mandatory for any mode besides -remote and -eutils.
edict(1), esearch(1), fetch-pubmed(1),
index-pubmed(1), nquire(1), phrase-search(1),
ref2pmid(1), transmute(1).