A C + + member function for parsing Interproscan results based on QT

The Domain prediction software Interproscan provides a variety of output formats, and the GFF3 format is chosen for the needs of post-analysis. I prefer to combine the database for analysis, so first import the data into the database.

I used QT to write the interface, so just add a qaction to the menu, and then add the slot function to the main window class. This gives me the slot function for parsing the file.

void Mainwindow::on_interprotomydb () {Pfamtomydbdlg * Dbdlg = new Pfamtomydbdlg (this);    Dbdlg->exec ();    QFile Qinfile (dbdlg->filename.tostdstring () c_str ());//QFile Qinfile ("MYPFAM.GFF3");    Qstringlist FullPath = Dbdlg->filename.split (Qregexp ("/"));    QString path;        for (int i = 0; i < fullpath.size ()-1; i++) {path.append (fullpath[i]);    Path.append ("/");    }//Qmessagebox::information (This, "ERROR2", Path);    QFile qoutfile ("A2.sql"); QFile qoutfile (path+dbdlg->name+ ". sql");//Qmessagebox::information (this, "ERROR3", dbdlg->    Filename.tostdstring (). C_STR ());//Qmessagebox::information (this, "ERROR4", dbdlg->name); if (!qoutfile.open (Qiodevice::readwrite |        Qiodevice::text) {qmessagebox::information (this, "ERROR1", "failed to open");    Return } if (!qinfile.open (qiodevice::readonly |        Qiodevice::text) {qmessagebox::information (this, "ERROR2", "failed to open");    return;    }Qtextstream Mytextstream (&qoutfile);        while (!qinfile.atend ()) {Qbytearray line = Qinfile.readline ();        Line[line.size () -1]= ' + ';        QString str (line); if (str[0]== ' # ' | |        Str.size () = = 0) {continue;        } if (!str.startswith ("Wp_")) {break;        } qstringlist sections = Str.split (Qregexp ("\ t"));        if (!sections[sections.size () -1].startswith ("Name")) {continue;        } qstringlist Sections2 = Sections[sections.size () -1].split (Qregexp (";"));        Qstringlist sections3 = Sections2[2].split (Qregexp (""));        QString SQL;                if (sections3.size ()! = 3 | | sections2.size ()! = 6 | |                 !sections3[0].startswith ("target=") | |                !sections2[0].startswith ("Name") | |                !sections2[1].startswith ("Signature_desc") | |                !sections2[3].startswith ("status") | |                !sections2[4].startswith ("ID") | | !sections2[5].startswith ("DaTE ")) {qmessagebox::warning (this," ERROR ", QString (" format is wrong he            Re, please add manully:\n ") +sections[sections.size () -1].tostdstring (). C_STR ());        Continue } sql.sprintf ("INSERT into Res_smart (Name, Signature_desc, Target,start, stop, status, Id_seq, date, Uid) values (\" %s\ ", \"%s\ ", '%s ', '%s ', '%s ', '%s ', '%s ', '%s ', (select Id from project_abbr where name = '%s '));", sections             2[0].split (qregexp ("=")) [1].tostdstring (). C_STR (), Sections2[1].split (qregexp ("=")) [1].tostdstring (). C_STR (),            Sections3[0].split (qregexp ("=")) [1].tostdstring (). C_STR (), sections3[1].tostdstring (). C_STR (),            Sections3[2].tostdstring (). C_STR (), Sections2[3].split (qregexp ("=")) [1].tostdstring (). C_STR (), Sections2[4].split (qregexp ("=")) [1].tostdstring (). C_STR (), Sections2[5].split (qregexp ("=")) [1].tostdstri Ng (). C_STR (), Dbdlg->naMe.tostdstring (). C_STR ());    mytextstream<<sql<< ' \ n ';    } qoutfile.close (); Qinfile.close ();}

Pfamtomydbdlg inherits from Qdialog, and also gives

#ifndef pfamtomydbdlg_h#define pfamtomydbdlg_h#include <QDialog> #include <QPushButton> #include < qlineedit> #include <QLabel> #include <qcombobox>class pfamtomydbdlg:public qdialog{    q_ Objectpublic:    QString filename;    QString name;public:    explicit Pfamtomydbdlg (Qwidget *parent = 0);p rivate:    qlabel *filenamelabel, *namelabel;    Qlineedit *filenameedit, *nameedit;    Qpushbutton *openfilebtn, *exebtn;    Qcombobox *namecombox;signals:public Slots:    void On_openfile ();    void On_exe ();}; #endif//Pfamtomydbdlg_h

#include "pfamtomydbdlg.h" #include <QHBoxLayout> #include <QVBoxLayout> #include <qmessagebox># Include <QFont> #include <QString> #include <QFileDialog> #include <qdebug>pfamtomydbdlg::    Pfamtomydbdlg (Qwidget *parent): Qdialog (parent) {Qvboxlayout * globallayout = new Qvboxlayout;    Qhboxlayout * filenamelayout = new Qhboxlayout;    Qhboxlayout * namelayout = new Qhboxlayout;    Filenamelabel = new Qlabel (tr ("Filename"));    Qfont * MyFont = new Qfont;    Myfont->setbold (TRUE);    Myfont->setpointsize (24);    Filenamelabel->setfont (*myfont);    Filenamelabel->setstylesheet ("color:red");    Filenameedit = new Qlineedit;    OPENFILEBTN = new Qpushbutton ("open");    Connect (openfilebtn, SIGNAL (clicked ()), this, SLOT (On_openfile ()));    Namelabel = new Qlabel (tr ("name"));    Namelabel->setfont (*myfont);    Namelabel->setstylesheet ("color:red");    Nameedit = new Qlineedit;    Namecombox = new Qcombobox; Namecombox->seteditabLe (True);    Namecombox->additem ("Cytophaga hutchinsonii");    Namecombox->additem ("Dyadobacter Fermentans");    Namecombox->additem ("Dyadobactor tibetensis");    Namecombox->additem ("Fibrella Aestuarina");    Namecombox->additem ("Fibrisome limi");    Namecombox->additem ("Fibrobacter succinogenes");    Namecombox->additem ("Runella slithyformis");    Namecombox->additem ("Leadbetterella Byssophilla");    Namecombox->additem ("Sporocytophaga myxococcoides");    Namecombox->additem ("Spirosoma Linguale");    EXEBTN = new Qpushbutton ("execute");    Connect (exebtn, SIGNAL (clicked ()), this, SLOT (On_exe ()));    Filenamelayout->addwidget (Filenamelabel);    Filenamelayout->addwidget (Filenameedit);    Filenamelayout->addwidget (OPENFILEBTN);    Namelayout->addwidget (Namelabel);    Namelayout->addwidget (Namecombox);    Globallayout->addlayout (filenamelayout);    Globallayout->addlayout (namelayout);    Globallayout->addwidget (EXEBTN); This->sEtlayout (globallayout);} void Pfamtomydbdlg::on_exe () {filename = Filenameedit->text (). trimmed (); name = Namecombox->currenttext ().    Trimmed ();//qdebug () << name; This->close ();} void Pfamtomydbdlg::on_openfile () {QString temp = Qfiledialog::getopenfilename (this, "open", "c:/desktop/", "Files" (*. *    )"); Filenameedit->settext (temp);}

The part to be extracted does not include the subsequent sequence. The middle part is characterized by a newline character to distinguish between different fields, so if you do not do complex analysis, you can copy this part of the results directly to Excel for analysis.

A C + + member function for parsing Interproscan results based on QT