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gentoo-full-overlay/sci-biology/clustalx/files/clustalx-2.1-qt5.patch

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Author: Andreas Tille <tille@debian.org>
Last-Update: Mon, 11 Sep 2017 09:30:38 +0200
Description: Porting to Qt5 following the hints at
https://wiki.qt.io/Transition_from_Qt_4.x_to_Qt5#QtWidgets_as_a_Separate_Module
https://wiki.qt.io/Transition_from_Qt_4.x_to_Qt5#toAscii.28.29_and_fromAscii.28.29_Methods_are_deprecated
--- a/clustalx.pro
+++ b/clustalx.pro
@@ -6,6 +6,7 @@ TEMPLATE = app
TARGET = clustalx
CONFIG += release static
QT += xml
+QT += widgets
VERSION = 2.1
win32 {
DEFINES += OS_WINDOWS
--- a/AlignOutputFileNames.cpp
+++ b/AlignOutputFileNames.cpp
@@ -20,7 +20,7 @@
#include <QGridLayout>
#include <QSizePolicy>
#include <QComboBox>
-#include <QtGui>
+#include <QtWidgets>
#include <QLabel>
#include <iostream>
#include "AlignOutputFileNames.h"
--- a/AlignmentFormatOptions.cpp
+++ b/AlignmentFormatOptions.cpp
@@ -5,7 +5,7 @@
#include <QGridLayout>
#include <QSizePolicy>
#include <QComboBox>
-#include <QtGui>
+#include <QtWidgets>
#include <QLabel>
#include "AlignmentFormatOptions.h"
#include "clustalW/general/userparams.h"
--- a/AlignmentParameters.cpp
+++ b/AlignmentParameters.cpp
@@ -11,7 +11,7 @@
#include <QGridLayout>
#include <QSizePolicy>
#include <QComboBox>
-#include <QtGui>
+#include <QtWidgets>
#include <QLabel>
#include <QButtonGroup>
#include <QLineEdit>
--- a/AlignmentViewerWidget.cpp
+++ b/AlignmentViewerWidget.cpp
@@ -60,7 +60,7 @@
*****************************************************************************/
-#include <QtGui>
+#include <QtWidgets>
#include <QFile>
#include <QTextStream>
#include "AlignmentViewerWidget.h"
--- a/AlignmentWidget.cpp
+++ b/AlignmentWidget.cpp
@@ -45,7 +45,7 @@
*
****************************************************************************/
-#include <QtGui>
+#include <QtWidgets>
#include "AlignmentWidget.h"
#include "clustalW/general/userparams.h"
#include "ClustalQtParams.h"
--- a/BootstrapTreeDialog.cpp
+++ b/BootstrapTreeDialog.cpp
@@ -12,7 +12,7 @@
#include <QGridLayout>
#include <QSizePolicy>
#include <QComboBox>
-#include <QtGui>
+#include <QtWidgets>
#include <QLabel>
#include <iostream>
#include "BootstrapTreeDialog.h"
--- a/ColorFileXmlParser.cpp
+++ b/ColorFileXmlParser.cpp
@@ -1,4 +1,4 @@
-#include <QtGui>
+#include <QtWidgets>
#include "ColorFileXmlParser.h"
#include "ClustalQtParams.h"
--- a/ColumnScoreParams.cpp
+++ b/ColumnScoreParams.cpp
@@ -11,7 +11,7 @@
#include <QGridLayout>
#include <QSizePolicy>
#include <QComboBox>
-#include <QtGui>
+#include <QtWidgets>
#include <QLabel>
#include <QButtonGroup>
#include <QLineEdit>
--- a/HelpDisplayWidget.cpp
+++ b/HelpDisplayWidget.cpp
@@ -16,7 +16,7 @@
#include <QTextEdit>
#include <iostream>
#include <fstream>
-#include <QtGui>
+#include <QtWidgets>
#include "Resources.h"
const string HelpDisplayWidget::helpFileName = "/usr/share/clustalx/clustalx.hlp";
--- a/HistogramWidget.cpp
+++ b/HistogramWidget.cpp
@@ -21,7 +21,7 @@
****************************************************************************/
#include "HistogramWidget.h"
-#include <QtGui>
+#include <QtWidgets>
#include <QImage>
//#include <QPixmap>
#include <QPoint>
--- a/LowScoringSegParams.cpp
+++ b/LowScoringSegParams.cpp
@@ -12,7 +12,7 @@
#include <QHBoxLayout>
#include <QSizePolicy>
#include <QComboBox>
-#include <QtGui>
+#include <QtWidgets>
#include <QLabel>
#include <QButtonGroup>
#include <QLineEdit>
--- a/PSPrinter.cpp
+++ b/PSPrinter.cpp
@@ -16,7 +16,7 @@
#include <ctime>
#include <iomanip>
#include <sstream>
-#include <QtGui>
+#include <QtWidgets>
#include "PSPrinter.h"
#include "ColorFileXmlParser.h"
#include "clustalW/general/userparams.h"
@@ -594,7 +594,7 @@ void PSPrinter::printHeaderLine(ofstream
{
psX = blockLeft + (i - fr) * CHARWIDTH;
(*psOutFile) << "(";
- (*psOutFile) << data->seqHeader[ix][i].toAscii();
+ (*psOutFile) << data->seqHeader[ix][i].toLatin1();
(*psOutFile) << ") ";
(*psOutFile) << psX << " " << psY << " " << psX << " "
<< psY << " 1.0 1.0 1.0 color_inv\n";
--- a/PairwiseParams.cpp
+++ b/PairwiseParams.cpp
@@ -18,7 +18,7 @@
#include <QRadioButton>
#include <QMessageBox>
#include <QHBoxLayout>
-#include <QtGui>
+#include <QtWidgets>
#include "clustalW/general/userparams.h"
#include "clustalW/substitutionMatrix/globalmatrix.h"
#include "FileDialog.h"
--- a/ProteinGapParameters.cpp
+++ b/ProteinGapParameters.cpp
@@ -5,7 +5,7 @@
#include <QGridLayout>
#include <QSizePolicy>
#include <QComboBox>
-#include <QtGui>
+#include <QtWidgets>
#include <QLabel>
#include <QString>
#include <QMessageBox>
--- a/SaveSeqFile.cpp
+++ b/SaveSeqFile.cpp
@@ -18,7 +18,7 @@
#include <QGridLayout>
#include <QSizePolicy>
#include <QComboBox>
-#include <QtGui>
+#include <QtWidgets>
#include <QLabel>
#include "SaveSeqFile.h"
#include "clustalW/general/userparams.h"
--- a/SecStructOptions.cpp
+++ b/SecStructOptions.cpp
@@ -5,7 +5,7 @@
#include <QGridLayout>
#include <QSizePolicy>
#include <QComboBox>
-#include <QtGui>
+#include <QtWidgets>
#include <QLabel>
#include <QLineEdit>
#include "SecStructOptions.h"
--- a/SeqNameWidget.cpp
+++ b/SeqNameWidget.cpp
@@ -55,7 +55,7 @@
*
****************************************************************************/
-#include <QtGui>
+#include <QtWidgets>
#include "SeqNameWidget.h"
#include "KeyController.h" //- nige
#include "clustalW/alignment/Alignment.h"
--- a/TreeFormatOptions.cpp
+++ b/TreeFormatOptions.cpp
@@ -4,7 +4,7 @@
#include <QGridLayout>
#include <QSizePolicy>
#include <QComboBox>
-#include <QtGui>
+#include <QtWidgets>
#include <QLabel>
#include <QCheckBox>
#include "TreeFormatOptions.h"
--- a/TreeOutputFileNames.cpp
+++ b/TreeOutputFileNames.cpp
@@ -11,7 +11,7 @@
#include <QGridLayout>
#include <QSizePolicy>
#include <QComboBox>
-#include <QtGui>
+#include <QtWidgets>
#include <QLabel>
#include <iostream>
#include "TreeOutputFileNames.h"
--- a/WritePostscriptFile.cpp
+++ b/WritePostscriptFile.cpp
@@ -18,7 +18,7 @@
#include <QGridLayout>
#include <QSizePolicy>
#include <QComboBox>
-#include <QtGui>
+#include <QtWidgets>
#include <QLabel>
#include <iostream>
#include "WritePostscriptFile.h"
--- a/mainwindow.cpp
+++ b/mainwindow.cpp
@@ -87,7 +87,7 @@
*
****************************************************************************/
-#include <QtGui>
+#include <QtWidgets>
#include <QPixmap>
#include <QFile>
#include <iostream>
--- a/ColorParameters.cpp
+++ b/ColorParameters.cpp
@@ -154,8 +154,8 @@ QColor ColorParameters::getResidueColor(
{
int i, j;
QChar colorParRes;
- char showRes = res.toAscii();
- char showCon = consensus.toAscii();
+ char showRes = res.toLatin1();
+ char showCon = consensus.toLatin1();
for(i = 0; i < colorPar.size(); i++)
{
@@ -171,7 +171,7 @@ QColor ColorParameters::getResidueColor(
for(j = 0; j < colorPar[i].consensusConditionList.size(); j++)
{
- char temp = colorPar[i].consensusConditionList[j].toAscii();
+ char temp = colorPar[i].consensusConditionList[j].toLatin1();
if(consensus == colorPar[i].consensusConditionList[j])
{
return colorPar[i].color;
@@ -191,8 +191,8 @@ int ColorParameters::getResidueColorNum(
{
int i, j;
QChar colorParRes;
- char showRes = res.toAscii();
- char showCon = consensus.toAscii();
+ char showRes = res.toLatin1();
+ char showCon = consensus.toLatin1();
for(i = 0; i < colorPar.size(); i++)
{
@@ -208,7 +208,7 @@ int ColorParameters::getResidueColorNum(
for(j = 0; j < colorPar[i].consensusConditionList.size(); j++)
{
- char temp = colorPar[i].consensusConditionList[j].toAscii();
+ char temp = colorPar[i].consensusConditionList[j].toLatin1();
if(consensus == colorPar[i].consensusConditionList[j])
{
return getIndexOfColor(colorPar[i].color);
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