diff --git a/LArCalorimeter/LArCafJobs/CMakeLists.txt b/LArCalorimeter/LArCafJobs/CMakeLists.txt
index 48c593bbfa42b13097ebd275a34650fcc80f22b7..b57041ca90cfb97e971a487c8951598201d0444c 100644
--- a/LArCalorimeter/LArCafJobs/CMakeLists.txt
+++ b/LArCalorimeter/LArCafJobs/CMakeLists.txt
@@ -5,48 +5,10 @@
 # Declare the package name:
 atlas_subdir( LArCafJobs )
 
-# Declare the package's dependencies:
-atlas_depends_on_subdirs( PUBLIC
-                          Calorimeter/CaloIdentifier
-                          Control/AthenaBaseComps
-                          Control/AthenaKernel
-                          Control/StoreGate
-                          Calorimeter/CaloDetDescr
-                          Calorimeter/CaloInterface
-                          DetectorDescription/Identifier
-                          GaudiKernel
-                          LArCalorimeter/LArIdentifier
-                          LArCalorimeter/LArRawConditions
-                          LArCalorimeter/LArRawEvent
-                          LArCalorimeter/LArRecConditions
-                          LArCalorimeter/LArCabling
-                          LArCalorimeter/LArCabling
-			   LArCalorimeter/LArBadChannelTool
-                          PhysicsAnalysis/AnalysisCommon/AnalysisTools
-                          PhysicsAnalysis/TruthParticleID/McParticleEvent
-                          Reconstruction/egamma/egammaEvent
-                          Tools/PyJobTransformsCore
-                          Trigger/TrigAnalysis/TrigAnalysisInterfaces
-                          Trigger/TrigAnalysis/TrigDecisionTool
-                          Trigger/TrigConfiguration/TrigConfInterfaces
-                          Trigger/TrigEvent/TrigSteeringEvent
-                          PRIVATE
-                          Calorimeter/CaloEvent
-                          Database/AthenaPOOL/AthenaPoolUtilities
-                          DataQuality/DataQualityUtils
-                          Event/xAOD/xAODEventInfo
-                          Event/NavFourMom
-                          LArCalorimeter/LArElecCalib
-                          LArCalorimeter/LArRecEvent
-                          Trigger/TrigConfiguration/TrigConfHLTData
-                          Trigger/TrigT1/TrigT1Result 
-                          Generators/AtlasHepMC )
-
 # External dependencies:
 find_package( Boost COMPONENTS filesystem thread system )
 find_package( ROOT COMPONENTS Matrix Core Tree MathCore Hist RIO pthread MathMore Minuit Minuit2 Physics HistPainter Rint Graf Graf3d Gpad Html Postscript Gui GX11TTF GX11 )
 
-# tag ROOTBasicLibs was not recognized in automatic conversion in cmt2cmake
 
 # Component(s) in the package:
 atlas_add_library( LArCafJobsLib
@@ -72,8 +34,8 @@ atlas_add_library( LArCafJobsLib
                    src/LArReadCells.cxx
                    PUBLIC_HEADERS LArCafJobs
                    PRIVATE_INCLUDE_DIRS ${Boost_INCLUDE_DIRS} ${ROOT_INCLUDE_DIRS} 
-                   LINK_LIBRARIES CaloIdentifier AthenaBaseComps AthenaKernel GaudiKernel LArIdentifier LArRawConditions LArRawEvent egammaEvent TrigSteeringEvent McParticleEvent StoreGateLib SGtests LArToolsLib TrigDecisionToolLib CaloDetDescrLib
-                   PRIVATE_LINK_LIBRARIES ${Boost_LIBRARIES} ${ROOT_LIBRARIES} DataQualityUtils Identifier xAODEventInfo LArRecConditions TrigConfHLTData TrigT1Result AtlasHepMCLib )
+                   LINK_LIBRARIES CaloIdentifier AthenaBaseComps AthenaKernel GaudiKernel LArIdentifier LArRawConditions LArRawEvent egammaEvent TrigSteeringEvent McParticleEvent StoreGateLib SGtests LArToolsLib TrigDecisionToolLib CaloDetDescrLib AthAnalysisToolsLib TrigAnalysisInterfaces CaloInterfaceLib 
+                   PRIVATE_LINK_LIBRARIES ${Boost_LIBRARIES} ${ROOT_LIBRARIES} DataQualityUtils Identifier xAODEventInfo LArRecConditions TrigConfHLTData TrigT1Result AtlasHepMCLib LArRecEvent )
 
 atlas_add_component( LArCafJobs
                      src/components/*.cxx
diff --git a/PhysicsAnalysis/D3PDMaker/D3PDMakerUtils/CMakeLists.txt b/PhysicsAnalysis/D3PDMaker/D3PDMakerUtils/CMakeLists.txt
index 7afd086a9b4abf9b47f27eb6237491a65e3d6731..9d93c660103a8777eb79d82db79aaf6e9c45e7be 100644
--- a/PhysicsAnalysis/D3PDMaker/D3PDMakerUtils/CMakeLists.txt
+++ b/PhysicsAnalysis/D3PDMaker/D3PDMakerUtils/CMakeLists.txt
@@ -5,18 +5,6 @@
 # Declare the package name:
 atlas_subdir( D3PDMakerUtils )
 
-# Declare the package's dependencies:
-atlas_depends_on_subdirs( PUBLIC
-                          Control/AthenaBaseComps
-                          Control/AthenaKernel
-                          Control/AthLinks
-                          Control/SGTools
-                          Control/StoreGate
-                          GaudiKernel
-                          PhysicsAnalysis/D3PDMaker/D3PDMakerInterfaces
-                          PRIVATE
-                          Control/AthContainersInterfaces )
-
 # External dependencies:
 find_package( Boost COMPONENTS filesystem thread system )
 find_package( ROOT COMPONENTS Core Tree MathCore Hist RIO pthread )
@@ -27,6 +15,6 @@ atlas_add_library( D3PDMakerUtils
                    PUBLIC_HEADERS D3PDMakerUtils
                    INCLUDE_DIRS ${Boost_INCLUDE_DIRS}
                    PRIVATE_INCLUDE_DIRS ${ROOT_INCLUDE_DIRS}
-                   LINK_LIBRARIES ${Boost_LIBRARIES} AthenaBaseComps AthenaKernel AthLinks SGTools GaudiKernel StoreGateLib SGtests
-                   PRIVATE_LINK_LIBRARIES ${ROOT_LIBRARIES} )
+                   LINK_LIBRARIES ${Boost_LIBRARIES} AthenaBaseComps AthenaKernel AthLinks SGTools GaudiKernel StoreGateLib SGtests D3PDMakerInterfaces
+                   PRIVATE_LINK_LIBRARIES AthContainersInterfaces ${ROOT_LIBRARIES} )
 
diff --git a/PhysicsAnalysis/ElectronPhotonID/ElectronPhotonTagTools/CMakeLists.txt b/PhysicsAnalysis/ElectronPhotonID/ElectronPhotonTagTools/CMakeLists.txt
index 3965a83ed1a6a8d3087c5d70ca7dc7883669445c..56ce531f68935082eab579ff1fc33970f82ec853 100644
--- a/PhysicsAnalysis/ElectronPhotonID/ElectronPhotonTagTools/CMakeLists.txt
+++ b/PhysicsAnalysis/ElectronPhotonID/ElectronPhotonTagTools/CMakeLists.txt
@@ -5,35 +5,11 @@
 # Declare the package name:
 atlas_subdir( ElectronPhotonTagTools )
 
-# Declare the package's dependencies:
-atlas_depends_on_subdirs( PUBLIC
-                          Control/AthenaBaseComps
-                          Control/StoreGate
-                          Database/AthenaPOOL/AthenaPoolUtilities
-                          Event/EventInfo
-                          Event/xAOD/xAODEgamma
-                          Event/xAOD/xAODEventInfo
-                          Event/xAOD/xAODMissingET
-                          GaudiKernel
-			  PhysicsAnalysis/ElectronPhotonID/IsolationCorrections
-                          PhysicsAnalysis/AnalysisCommon/IsolationSelection
-			  PhysicsAnalysis/Interfaces/EgammaAnalysisInterfaces
-                          PhysicsAnalysis/EventTag/TagEvent
-                          PRIVATE
-                          Event/xAOD/xAODCore
-                          Event/xAOD/xAODParticleEvent
-                          Event/xAOD/xAODTracking
-                          PhysicsAnalysis/AnalysisCommon/AnalysisUtils )
-
-# tag ROOTGraphicsLibs was not recognized in automatic conversion in cmt2cmake
-
-# tag ROOTMathLibs was not recognized in automatic conversion in cmt2cmake
-
 # Component(s) in the package:
 atlas_add_library( ElectronPhotonTagToolsLib
                    src/*.cxx
                    PUBLIC_HEADERS ElectronPhotonTagTools
-                   LINK_LIBRARIES AthenaBaseComps AthenaPoolUtilities EventInfo xAODEgamma xAODEventInfo xAODMissingET GaudiKernel TagEvent StoreGateLib SGtests IsolationSelectionLib EgammaAnalysisInterfacesLib AnalysisUtilsLib
+                   LINK_LIBRARIES AthenaBaseComps AthenaPoolUtilities EventInfo xAODEgamma xAODEventInfo xAODMissingET GaudiKernel TagEvent StoreGateLib SGtests IsolationSelectionLib EgammaAnalysisInterfacesLib AnalysisUtilsLib IsolationCorrectionsLib
                    PRIVATE_LINK_LIBRARIES xAODCore xAODParticleEvent xAODTracking )
 
 atlas_add_component( ElectronPhotonTagTools