Add --input-format option
#1269
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Add a common `--input-format` option which accepts the same values as the `--output-format` option, but indicates the expected format of the input file (as loaded by the `CommandLineHelper.updateInputOntology` method).
Update the `CommandLineHelper.getInputOntologies()` methods so that they too use the `--input-format` option if it is present in the command line.
Mention the `--input-format` option in the global documentation. Add a basic test in which we attempt to load a OFN-formatted file that imports a OWL file, first with the correct format, then with an incorrect format.
matentzn
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matentzn
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It looks great to me, I left a few comments for the next reviewer (not for you @gouttegd). The diff is a bit suboptimal for an easy review, but i got it in the end
- You did not remove any method ✅
- Your changes are documented ✅
- The default behaviour appears to be preserved (based my reading of FileDocumentSource(x,y)) ✅
@balhoff can you also to a sweep?
| // Otherwise load from file using default method | ||
| return loadOntology(manager, new FileDocumentSource(ontologyFile)); | ||
| OWLDocumentFormat fmt = inputFormat != null ? getFormat(inputFormat) : null; | ||
| return loadOntology(manager, new FileDocumentSource(ontologyFile, fmt)); |
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Note to next reviewer: I expect that FileDocumentSource(,) handles the case where fmt is null by trying to "guess" the format as usual. This is the most important assumption in this PR as it basically ensures that the old functionality prevails when no --input-format is supplied.
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Yes. Calling the FileDocumentSource constructor with a null argument for the document format is basically the same thing as calling the 1-argument constructor. In fact the 1-argument constructor does nothing else but calling another constructor with a null argument for the format.
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Much appreciated! |
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Resolves [#1038]
docs/have been added/updatedmvn verifysays all tests passmvn sitesays all JavaDocs correctCHANGELOG.mdhas been updatedThis PR is another attempt to implement the
--input-formatoption requested in #1038. The difference with #1056 is that instead of restricting the parsers available to the OWLManager (which has the side effect that imports cannot be parsed if they happen to be in a different format than the main ontology), here we simply explicitly pass aOWLDocumentFormatobject when constructing theOWLOntologyDocumentSource(as suggested by @balhoff here).