void gobble(istream&);
void gobble(istringstream&);
map<string, int> readNames(string);
+ int readNames(string, vector<seqPriorityNode>&, map<string, string>&);
//searchs and checks
bool checkReleaseVersion(ifstream&, string);
string getOligosFile() { return oligosfile; }
string getAccnosFile() { return accnosfile; }
string getTaxonomyFile() { return taxonomyfile; }
+ string getFlowFile() { return flowfile; }
string getProcessors() { return processors; }
void setListFile(string f) { listfile = getFullPathName(f); }
void setOligosFile(string f) { oligosfile = getFullPathName(f); }
void setAccnosFile(string f) { accnosfile = getFullPathName(f); }
void setTaxonomyFile(string f) { taxonomyfile = getFullPathName(f); }
+ void setFlowFile(string f) { flowfile = getFullPathName(f); }
void setProcessors(string p) { processors = p; }
void printCurrentFiles();
accnosfile = "";
taxonomyfile = "";
processors = "1";
+ flowfile = "";
gui = false;
};
~MothurOut();
string releaseDate, version;
string accnosfile, phylipfile, columnfile, listfile, rabundfile, sabundfile, namefile, groupfile, designfile, taxonomyfile;
- string orderfile, treefile, sharedfile, ordergroupfile, relabundfile, fastafile, qualfile, sfffile, oligosfile, processors;
+ string orderfile, treefile, sharedfile, ordergroupfile, relabundfile, fastafile, qualfile, sfffile, oligosfile, processors, flowfile;
ofstream out;