|
Last change
on this file was
7623,
checked in by westram, 14 years ago
|
- merge from dev [7450] [7452] [7456] [7457] [7458] [7459] [7460] [7461] [7464] [7465] [7466] [7467] [7468] [7469] [7482]
- tweaked compiler options
- activated -Weffc++
- postfilter warnings where Scott Meyers' advices are too general.
- base classes should not always have virtual destructors, since that renders tiny classes useless and
- members should not always be initialized via initialization list, since that often violates the DRY principle
- fix gcc's inability to detect that Noncopyable implements a private copy-ctor and op=
- this slows down complete ARB recompilation by ~5%
- added -Wold-style-cast (inactive)
- removed -Wno-non-template-friend added in [7447]
- postcompile.pl
- added option —original to show unmodified compiler output
- declared op= for classes which had a copy-ctor
- moved op= macros to arbtools.h
- derived classes containing pointers from Noncopyable (use Noncopyable virtually) or
- made them copyable if needed (awt_mask_item, KnownDB, Code, AWT_registered_itemtype, GEN_gene, PosGene, PartialSequence, PlugIn, Range, Convaln_exception)
- other related changes
 mask destruction working now
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File size:
1.3 KB
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| 1 | #ifndef FUN_H |
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| 2 | #define FUN_H |
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| 3 | |
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| 4 | #ifndef ARBTOOLS_H |
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| 5 | #include <arbtools.h> |
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| 6 | #endif |
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| 7 | |
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| 8 | // forward decls for prototypes |
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| 9 | |
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| 10 | enum Format { |
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| 11 | // input/output formats |
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| 12 | EMBL, |
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| 13 | GENBANK, |
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| 14 | MACKE, |
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| 15 | SWISSPROT, |
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| 16 | LAST_INPUT_FORMAT = SWISSPROT, |
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| 17 | |
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| 18 | // output-only formats |
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| 19 | GCG, |
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| 20 | NEXUS, |
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| 21 | PHYLIP, |
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| 22 | FASTDNAML, |
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| 23 | PRINTABLE, |
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| 24 | |
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| 25 | UNKNOWN, |
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| 26 | }; |
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| 27 | |
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| 28 | inline bool is_input_format(Format inType) { return inType <= LAST_INPUT_FORMAT; } |
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| 29 | |
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| 30 | class Reader; |
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| 31 | class Writer; |
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| 32 | |
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| 33 | struct Embl; |
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| 34 | struct Emblref; |
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| 35 | struct EmblSwissprotReader; |
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| 36 | struct GenBank; |
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| 37 | struct GenbankRef; |
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| 38 | struct GenbankReader; |
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| 39 | struct Macke; |
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| 40 | struct MackeReader; |
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| 41 | struct Paup; |
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| 42 | struct Seq; |
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| 43 | struct Alignment; |
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| 44 | |
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| 45 | struct RDP_comments; |
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| 46 | struct OrgInfo; |
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| 47 | struct SeqInfo; |
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| 48 | |
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| 49 | typedef void (*RDP_comment_parser)(char*& datastring, int start_index, Reader& reader); |
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| 50 | |
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| 51 | class FormattedFile : virtual Noncopyable { |
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| 52 | char *name_; |
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| 53 | Format type_; |
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| 54 | public: |
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| 55 | FormattedFile() : name_(0), type_(UNKNOWN) {} |
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| 56 | FormattedFile(const char *Name, Format Type); |
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| 57 | ~FormattedFile(); |
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| 58 | |
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| 59 | void init(const char *Name, Format Type); |
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| 60 | |
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| 61 | const char *name() const { return name_; } |
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| 62 | Format type() const { return type_; } |
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| 63 | }; |
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| 64 | |
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| 65 | #ifndef FILEBUFFER_H |
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| 66 | #include <FileBuffer.h> |
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| 67 | #endif |
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| 68 | #ifndef PROTOTYPES_H |
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| 69 | #include "prototypes.h" |
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| 70 | #endif |
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| 71 | |
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| 72 | #else |
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| 73 | #error fun.h included twice |
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| 74 | #endif // FUN_H |
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| 75 | |
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