1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
|
//
// renamefilecommand.h
// Mothur
//
// Created by Sarah Westcott on 4/18/16.
// Copyright (c) 2016 Schloss Lab. All rights reserved.
//
#ifndef __Mothur__renamefilecommand__
#define __Mothur__renamefilecommand__
#include "command.hpp"
class RenameFileCommand : public Command {
#ifdef UNIT_TEST
friend class TestRenameFileCommand;
#endif
public:
RenameFileCommand(string);
~RenameFileCommand(){}
vector<string> setParameters();
string getCommandName() { return "rename.file"; }
string getCommandCategory() { return "General"; }
string getHelpString();
string getOutputPattern(string);
string getCitation() { return "http://www.mothur.org/wiki/rename.file"; }
string getDescription() { return "renames file and updates current"; }
int execute();
void help() { m->mothurOut(getHelpString()); }
private:
string accnosfile, phylipfile, columnfile, listfile, rabundfile, sabundfile, namefile, groupfile, designfile, taxonomyfile, biomfile, countfile, summaryfile, inputfile;
string treefile, sharedfile, ordergroupfile, relabundfile, fastafile, qualfile, sfffile, oligosfile, flowfile, filefile, outputfile, constaxonomyfile, prefix;
bool mothurGenerated, abort, deleteOld;
vector<string> outputNames;
string getNewName(string name, string type);
string renameOrCopy(string oldName, string newName);
};
#endif /* defined(__Mothur__renamefilecommand__) */
|
