diff --git a/release/linux/create_installer_linux.sh b/release/linux/create_installer_linux.sh
index 8616c7b..4cfc2e6 100755
--- a/release/linux/create_installer_linux.sh
+++ b/release/linux/create_installer_linux.sh
@@ -1,5 +1,7 @@
 #!bash
 
+# TODO remove with old release workflow
+
 # Initial cleanup
 rm -rf dist
 rm -rf build
diff --git a/release/macos/create_installer_macos.sh b/release/macos/create_installer_macos.sh
index ac70f6e..87d414d 100755
--- a/release/macos/create_installer_macos.sh
+++ b/release/macos/create_installer_macos.sh
@@ -1,5 +1,7 @@
 #!bash
 
+# TODO remove with old release workflow
+
 # Initial cleanup
 rm -rf dist
 rm -rf build
diff --git a/release/windows/build_package_windows.ps1 b/release/windows/build_package_windows.ps1
index 3c1451c..7627040 100644
--- a/release/windows/build_package_windows.ps1
+++ b/release/windows/build_package_windows.ps1
@@ -2,11 +2,5 @@
 # This script must be run from the root of the repository after running build_installer_windows.ps1
 
 
-# Apparently, ISCC uses the directory of the .iss input file as the working directory.
-mkdir release/windows/dist
-mv dist_pyinstaller/* release/windows/dist
-
 # Wrapping the pyinstaller folder in a .exe package
 &  "C:\Program Files (x86)\Inno Setup 6\ISCC.exe" .\release\windows\directlfq_innoinstaller.iss
-# release workflow expects artifact at root of repository
-mv .\release\windows\dist\*.exe .
diff --git a/release/windows/create_installer_windows.sh b/release/windows/create_installer_windows.sh
index 4f30f5c..b4e798a 100644
--- a/release/windows/create_installer_windows.sh
+++ b/release/windows/create_installer_windows.sh
@@ -1,5 +1,7 @@
 #!bash
 
+# TODO remove with old release workflow
+
 # Initial cleanup
 rm -rf dist
 rm -rf build
@@ -29,5 +31,5 @@ conda deactivate
 # cp ../../directlfq/data/*.fasta dist/directlfq/data
 
 # Wrapping the pyinstaller folder in a .exe package
-"C:\Program Files (x86)\Inno Setup 6\ISCC.exe" directlfq_innoinstaller.iss
+"C:\Program Files (x86)\Inno Setup 6\ISCC.exe" directlfq_innoinstaller_old.iss
 # WARNING: this assumes a static location for innosetup
diff --git a/release/windows/directlfq_innoinstaller.iss b/release/windows/directlfq_innoinstaller.iss
index 4394a6e..ca56384 100644
--- a/release/windows/directlfq_innoinstaller.iss
+++ b/release/windows/directlfq_innoinstaller.iss
@@ -1,6 +1,9 @@
 ; Script generated by the Inno Setup Script Wizard.
 ; SEE THE DOCUMENTATION FOR DETAILS ON CREATING INNO SETUP SCRIPT FILES!
 
+; Note: apparently, ISCC uses the directory of the .iss input file as the working directory,
+; so all paths are given relative to the location of this .iss file.
+
 #define MyAppName "directlfq"
 #define MyAppVersion "0.2.20"
 #define MyAppPublisher "Max Planck Institute of Biochemistry and the University of Copenhagen, Mann Labs"
@@ -24,7 +27,8 @@ LicenseFile=..\..\LICENSE
 ; Uncomment the following line to run in non administrative install mode (install for current user only.)
 PrivilegesRequired=lowest
 PrivilegesRequiredOverridesAllowed=dialog
-OutputDir=dist
+; release workflow expects artifact at root of repository
+OutputDir=..\..\
 ; example for BUILD_NAME: directlfq-1.2.3-windows-amd64
 OutputBaseFilename={#GetEnv('BUILD_NAME')}
 SetupIconFile=..\logos\alpha_logo.ico
@@ -39,8 +43,8 @@ Name: "english"; MessagesFile: "compiler:Default.isl"
 Name: "desktopicon"; Description: "{cm:CreateDesktopIcon}"; GroupDescription: "{cm:AdditionalIcons}"; Flags: unchecked
 
 [Files]
-Source: "dist\directlfq_gui\{#MyAppExeName}"; DestDir: "{app}"; Flags: ignoreversion
-Source: "dist\directlfq_gui\*"; DestDir: "{app}"; Flags: ignoreversion recursesubdirs createallsubdirs
+Source: "..\..\dist_pyinstaller\directlfq_gui\{#MyAppExeName}"; DestDir: "{app}"; Flags: ignoreversion
+Source: "..\..\dist_pyinstaller\directlfq_gui\*"; DestDir: "{app}"; Flags: ignoreversion recursesubdirs createallsubdirs
 ; NOTE: Don't use "Flags: ignoreversion" on any shared system files
 
 [Icons]
diff --git a/release/windows/directlfq_innoinstaller_old.iss b/release/windows/directlfq_innoinstaller_old.iss
new file mode 100644
index 0000000..cd5cede
--- /dev/null
+++ b/release/windows/directlfq_innoinstaller_old.iss
@@ -0,0 +1,52 @@
+; Script generated by the Inno Setup Script Wizard.
+; SEE THE DOCUMENTATION FOR DETAILS ON CREATING INNO SETUP SCRIPT FILES!
+; # TODO remove with old release workflow
+
+#define MyAppName "directlfq"
+#define MyAppVersion "0.2.20"
+#define MyAppPublisher "Max Planck Institute of Biochemistry and the University of Copenhagen, Mann Labs"
+#define MyAppURL "https://github.com/MannLabs/directlfq"
+#define MyAppExeName "directlfq_gui.exe"
+
+[Setup]
+; NOTE: The value of AppId uniquely identifies this application. Do not use the same AppId value in installers for other applications.
+; (To generate a new GUID, click Tools | Generate GUID inside the IDE.)
+AppId={{directlfq_Mann_Labs_MPI_CPR}
+AppName={#MyAppName}
+AppVersion={#MyAppVersion}
+;AppVerName={#MyAppName} {#MyAppVersion}
+AppPublisher={#MyAppPublisher}
+AppPublisherURL={#MyAppURL}
+AppSupportURL={#MyAppURL}
+AppUpdatesURL={#MyAppURL}
+DefaultDirName={autopf}\{#MyAppName}
+DisableProgramGroupPage=yes
+LicenseFile=..\..\LICENSE
+; Uncomment the following line to run in non administrative install mode (install for current user only.)
+PrivilegesRequired=lowest
+PrivilegesRequiredOverridesAllowed=dialog
+OutputDir=dist
+; example for BUILD_NAME: directlfq-1.2.3-windows-amd64
+OutputBaseFilename={#GetEnv('BUILD_NAME')}
+SetupIconFile=..\logos\alpha_logo.ico
+Compression=lzma
+SolidCompression=yes
+WizardStyle=modern
+
+[Languages]
+Name: "english"; MessagesFile: "compiler:Default.isl"
+
+[Tasks]
+Name: "desktopicon"; Description: "{cm:CreateDesktopIcon}"; GroupDescription: "{cm:AdditionalIcons}"; Flags: unchecked
+
+[Files]
+Source: "dist\directlfq_gui\{#MyAppExeName}"; DestDir: "{app}"; Flags: ignoreversion
+Source: "dist\directlfq_gui\*"; DestDir: "{app}"; Flags: ignoreversion recursesubdirs createallsubdirs
+; NOTE: Don't use "Flags: ignoreversion" on any shared system files
+
+[Icons]
+Name: "{autoprograms}\{#MyAppName}"; Filename: "{app}\{#MyAppExeName}"
+Name: "{autodesktop}\{#MyAppName}"; Filename: "{app}\{#MyAppExeName}"; Tasks: desktopicon
+
+[Run]
+Filename: "{app}\{#MyAppExeName}"; Description: "{cm:LaunchProgram,{#StringChange(MyAppName, '&', '&&')}}"; Flags: nowait postinstall skipifsilent