Merge pull request #159212 from helsinki-systems/init/febio-studio

febio-studio: init at 1.6.1

pkgs/applications/science/biology/febio-studio/default.nix

@@ -0,0 +1,61 @@
+{ lib, stdenv, fetchFromGitHub, cmake, zlib, libglvnd, libGLU, wrapQtAppsHook
+, sshSupport ? true, openssl, libssh
+, tetgenSupport ? true, tetgen
+, ffmpegSupport ? true, ffmpeg
+, dicomSupport  ? false, dcmtk
+, withModelRepo ? true
+, withCadFeatures ? false
+}:
+
+stdenv.mkDerivation rec {
+  pname = "febio-studio";
+  version = "1.6.1";
+
+  src = fetchFromGitHub {
+    owner = "febiosoftware";
+    repo = "FEBioStudio";
+    rev = "v${version}";
+    sha256 = "0r6pg49i0q9idp7pjymj7mlxd63qjvmfvg0l7fmx87y1yd2hfw4h";
+  };
+
+  patches = [
+    ./febio-studio-cmake.patch # Fix Errors that appear with certain Cmake flags
+  ];
+
+  cmakeFlags = [
+    "-DQt_Ver=5"
+    "-DNOT_FIRST=On"
+    "-DOpenGL_GL_PREFERENCE=GLVND"
+  ]
+    ++ lib.optional sshSupport "-DUSE_SSH=On"
+    ++ lib.optional tetgenSupport "-DUSE_TETGEN=On"
+    ++ lib.optional ffmpegSupport "-DUSE_FFMPEG=On"
+    ++ lib.optional dicomSupport "-DUSE_DICOM=On"
+    ++ lib.optional withModelRepo "-DMODEL_REPO=On"
+    ++ lib.optional withCadFeatures "-DCAD_FEATURES=On"
+  ;
+
+
+  installPhase = ''
+    runHook preInstall
+    mkdir -p $out/
+    cp -R bin $out/
+    runHook postInstall
+  '';
+
+  nativeBuildInputs = [ cmake wrapQtAppsHook ];
+  buildInputs = [ zlib libglvnd libGLU openssl libssh ]
+    ++ lib.optional sshSupport openssl
+    ++ lib.optional tetgenSupport tetgen
+    ++ lib.optional ffmpegSupport ffmpeg
+    ++ lib.optional dicomSupport dcmtk
+  ;
+
+  meta = with lib; {
+    description = "FEBio Suite Solver";
+    license = with licenses; [ mit ];
+    homepage = "https://febio.org/";
+    platforms = platforms.unix;
+    maintainers = with maintainers; [ Scriptkiddi ];
+  };
+}

pkgs/applications/science/biology/febio-studio/febio-studio-cmake.patch

@@ -0,0 +1,38 @@
+diff --git a/FEBioStudio/RepositoryPanel.cpp b/FEBioStudio/RepositoryPanel.cpp
+index 382db303..314cdc68 100644
+--- a/FEBioStudio/RepositoryPanel.cpp
++++ b/FEBioStudio/RepositoryPanel.cpp
+@@ -1364,10 +1364,10 @@ void CRepositoryPanel::loadingPageProgress(qint64 bytesSent, qint64 bytesTotal)
+ 
+ #else
+ 
+-CRepositoryPanel::CRepositoryPanel(CMainWindow* pwnd, QWidget* parent){}
++CRepositoryPanel::CRepositoryPanel(CMainWindow* pwnd, QDockWidget* parent){}
+ CRepositoryPanel::~CRepositoryPanel(){}
+ void CRepositoryPanel::OpenLink(const QString& link) {}
+-// void CRepositoryPanel::Raise() {}
++void CRepositoryPanel::Raise() {}
+ void CRepositoryPanel::SetModelList(){}
+ void CRepositoryPanel::ShowMessage(QString message) {}
+ void CRepositoryPanel::ShowWelcomeMessage(QByteArray messages) {}
+@@ -1396,6 +1396,7 @@ void CRepositoryPanel::on_actionSearch_triggered() {}
+ void CRepositoryPanel::on_actionClearSearch_triggered() {}
+ void CRepositoryPanel::on_actionDeleteRemote_triggered() {}
+ void CRepositoryPanel::on_actionModify_triggered() {}
++void CRepositoryPanel::on_actionCopyPermalink_triggered() {}
+ void CRepositoryPanel::on_treeWidget_itemSelectionChanged() {}
+ void CRepositoryPanel::on_treeWidget_customContextMenuRequested(const QPoint &pos) {}
+ void CRepositoryPanel::DownloadItem(CustomTreeWidgetItem *item) {}
+diff --git a/FEBioStudio/WzdUpload.cpp b/FEBioStudio/WzdUpload.cpp
+index 5ce74346..20062e06 100644
+--- a/FEBioStudio/WzdUpload.cpp
++++ b/FEBioStudio/WzdUpload.cpp
+@@ -1183,7 +1183,7 @@ void CWzdUpload::on_saveJson_triggered()
+ 		getProjectJson(&projectInfo);
+ 
+ 		QFile file(filedlg.selectedFiles()[0]);
+-		file.open(QIODeviceBase::WriteOnly);
++		file.open(QIODevice::WriteOnly);
+ 		file.write(projectInfo);
+ 		file.close();
+ 	}

pkgs/top-level/all-packages.nix

@@ -31892,6 +31892,8 @@ with pkgs;
 
   fastp = callPackage ../applications/science/biology/fastp { };
 
+  febio-studio = libsForQt5.callPackage ../applications/science/biology/febio-studio { };
+
   hisat2 = callPackage ../applications/science/biology/hisat2 { };
 
   htslib = callPackage ../development/libraries/science/biology/htslib { };