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ElucidataInc / ElMaven

LC-MS data processing tool for large-scale metabolomics experiments.
https://resources.elucidata.io/elmaven/
GNU General Public License v2.0
87 stars 52 forks source link

Installation failure on Ubuntu 18.04.3 LTS #1206

Closed greg-harhay closed 4 years ago

greg-harhay commented 4 years ago

I ran the apt-get commands to configure my environment without a problem:

sudo apt-get update sudo apt-get install g++ sudo apt-get install libsqlite3-dev libboost-all-dev lcov libnetcdf-dev sudo apt-get install qt5-qmake qtbase5-dev qtscript5-dev qtdeclarative5-dev libqt5multimedia5 sudo apt-get install libqt5multimedia5-plugins qtmultimedia5-dev libqt5webkit5-dev

I cloned the git repository and tried to make the executable but failed. Compliation failed at:

sentry.h:50:10: fatal error: uuid/uuid.h: No such file or directory

I'm pasting the output from "make -j4" below. Suggestions to remedy?

$ qmake CONFIG+=release build.pro $ make -j4

cd 3rdparty/ && ( test -e Makefile || /home/greg/anaconda3/bin/qmake -o Makefile /home/greg/apps/ElMaven/3rdparty/3rdparty.pro CONFIG+=release ) && make -f Makefile make[1]: Entering directory '/home/greg/apps/ElMaven/3rdparty' cd obiwarp/ && ( test -e Makefile || /home/greg/anaconda3/bin/qmake -o Makefile /home/greg/apps/ElMaven/3rdparty/obiwarp/obiwarp.pro CONFIG+=release ) && make -f Makefile make[2]: Entering directory '/home/greg/apps/ElMaven/3rdparty/obiwarp' compiling dynprog.cpp compiling obiwarp.cpp compiling mat.cpp compiling vec.cpp rm -f /home/greg/apps/build/libs/libobiwarp.a ar cqs /home/greg/apps/build/libs/libobiwarp.a /home/greg/apps/build/tmp/obiwarp/obiwarp.o /home/greg/apps/build/tmp/obiwarp/dynprog.o /home/greg/apps/build/tmp/obiwarp/mat.o /home/greg/apps/build/tmp/obiwarp/vec.o make[2]: Leaving directory '/home/greg/apps/ElMaven/3rdparty/obiwarp' cd libneural/ && ( test -e Makefile || /home/greg/anaconda3/bin/qmake -o Makefile /home/greg/apps/ElMaven/3rdparty/libneural/libneural.pro CONFIG+=release ) && make -f Makefile make[2]: Entering directory '/home/greg/apps/ElMaven/3rdparty/libneural' compiling neuron.cc compiling nnwork.cc rm -f /home/greg/apps/build/libs/libneural.a ar cqs /home/greg/apps/build/libs/libneural.a /home/greg/apps/build/tmp/neural/neuron.o /home/greg/apps/build/tmp/neural/nnwork.o make[2]: Leaving directory '/home/greg/apps/ElMaven/3rdparty/libneural' cd libcdfread/ && ( test -e Makefile || /home/greg/anaconda3/bin/qmake -o Makefile /home/greg/apps/ElMaven/3rdparty/libcdfread/libcdfread.pro CONFIG+=release ) && make -f Makefile make[2]: Entering directory '/home/greg/apps/ElMaven/3rdparty/libcdfread' compiling ms10aux.c compiling ms10enum.c compiling ms10io.c rm -f /home/greg/apps/build/libs/libcdfread.a ar cqs /home/greg/apps/build/libs/libcdfread.a /home/greg/apps/build/tmp/cdfread/ms10aux.o /home/greg/apps/build/tmp/cdfread/ms10enum.o /home/greg/apps/build/tmp/cdfread/ms10io.o make[2]: Leaving directory '/home/greg/apps/ElMaven/3rdparty/libcdfread' cd libcsvparser/ && ( test -e Makefile || /home/greg/anaconda3/bin/qmake -o Makefile /home/greg/apps/ElMaven/3rdparty/libcsvparser/libcsvparser.pro CONFIG+=release ) && make -f Makefile make[2]: Entering directory '/home/greg/apps/ElMaven/3rdparty/libcsvparser' compiling csvparser.c rm -f /home/greg/apps/build/libs/libcsvparser.a ar cqs /home/greg/apps/build/libs/libcsvparser.a /home/greg/apps/build/tmp/csv_parser/csvparser.o make[2]: Leaving directory '/home/greg/apps/ElMaven/3rdparty/libcsvparser' cd pugixml/src/ && ( test -e Makefile || /home/greg/anaconda3/bin/qmake -o Makefile /home/greg/apps/ElMaven/3rdparty/pugixml/src/src.pro CONFIG+=release ) && make -f Makefile make[2]: Entering directory '/home/greg/apps/ElMaven/3rdparty/pugixml/src' compiling pugixml.cpp rm -f /home/greg/apps/build/libs/libpugixml.a ar cqs /home/greg/apps/build/libs/libpugixml.a /home/greg/apps/build/tmp/pugixml/pugixml.o make[2]: Leaving directory '/home/greg/apps/ElMaven/3rdparty/pugixml/src' cd libpillow/ && ( test -e Makefile || /home/greg/anaconda3/bin/qmake -o Makefile /home/greg/apps/ElMaven/3rdparty/libpillow/libpillow.pro CONFIG+=release ) && make -f Makefile make[2]: Entering directory '/home/greg/apps/ElMaven/3rdparty/libpillow' compiling pch.h compiling pch.h compiling parser/parser.c compiling parser/http_parser.c parser.c: In function ‘thin_http_parser_execute’: parser.rl:25:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.rl:27:1: note: here parser.rl:42:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.rl:44:1: note: here parser.rl:25:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.rl:27:1: note: here parser.rl:46:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.rl:48:1: note: here parser.rl:25:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.rl:27:1: note: here parser.c:256:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:258:1: note: here parser.c:263:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:265:1: note: here parser.c:270:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:272:1: note: here parser.c:277:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:279:1: note: here parser.c:284:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:286:1: note: here parser.c:293:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:295:1: note: here parser.c:300:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:302:1: note: here parser.rl:38:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.rl:40:1: note: here parser.c:342:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:344:1: note: here parser.c:370:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:372:1: note: here parser.rl:28:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.rl:30:1: note: here parser.rl:33:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.rl:35:1: note: here parser.rl:33:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.rl:35:1: note: here parser.rl:46:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.rl:48:1: note: here parser.rl:25:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.rl:27:1: note: here parser.rl:25:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.rl:27:1: note: here parser.c:555:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:557:1: note: here parser.c:568:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:570:1: note: here parser.rl:25:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.rl:27:1: note: here parser.rl:25:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.rl:27:1: note: here parser.c:624:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:626:1: note: here parser.c:639:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:641:1: note: here parser.c:652:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:654:1: note: here parser.rl:25:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.rl:27:1: note: here parser.c:684:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:686:1: note: here parser.c:699:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:701:1: note: here parser.c:712:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:714:1: note: here parser.rl:66:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.rl:68:1: note: here parser.rl:52:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.rl:54:1: note: here parser.rl:52:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.rl:54:1: note: here parser.c:784:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:786:1: note: here parser.c:797:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:799:1: note: here parser.c:810:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:812:1: note: here parser.c:828:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:830:1: note: here parser.c:846:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:848:1: note: here parser.c:864:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:866:1: note: here parser.c:882:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:884:1: note: here parser.c:900:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:902:1: note: here parser.c:918:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:920:1: note: here parser.c:936:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:938:1: note: here parser.c:954:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:956:1: note: here parser.c:972:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:974:1: note: here parser.c:990:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:992:1: note: here parser.c:1008:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:1010:1: note: here parser.c:1026:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:1028:1: note: here parser.c:1044:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:1046:1: note: here parser.c:1062:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:1064:1: note: here parser.c:1080:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:1082:1: note: here parser.c:1098:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:1100:1: note: here parser.c:1116:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:1118:1: note: here parser.c:1134:5: warning: this statement may fall through [-Wimplicit-fallthrough=] parser.c:1136:1: note: here compiling HttpServer.cpp compiling HttpHandler.cpp compiling HttpHandlerQtScript.cpp compiling HttpHelpers.cpp compiling HttpsServer.cpp compiling HttpHandlerSimpleRouter.cpp compiling HttpConnection.cpp compiling HttpHandlerProxy.cpp generating /home/greg/apps/ElMaven/../build/tmp/pillow//moc_predefs.h compiling HttpHeader.cpp moc HttpServer.h moc HttpHandler.h moc HttpHandlerQtScript.h moc HttpsServer.h moc HttpHandlerSimpleRouter.h moc HttpConnection.h moc HttpHandlerProxy.h moc HttpClient.h moc HttpClient.cpp compiling /home/greg/apps/build/tmp/pillow/moc_HttpServer.cpp compiling /home/greg/apps/build/tmp/pillow/moc_HttpHandler.cpp compiling /home/greg/apps/build/tmp/pillow/moc_HttpHandlerQtScript.cpp compiling /home/greg/apps/build/tmp/pillow/moc_HttpsServer.cpp compiling /home/greg/apps/build/tmp/pillow/moc_HttpHandlerSimpleRouter.cpp compiling /home/greg/apps/build/tmp/pillow/moc_HttpConnection.cpp compiling /home/greg/apps/build/tmp/pillow/moc_HttpHandlerProxy.cpp compiling /home/greg/apps/build/tmp/pillow/moc_HttpClient.cpp compiling HttpClient.cpp rm -f /home/greg/apps/build/libs/libpillowcore.a ar cqs /home/greg/apps/build/libs/libpillowcore.a /home/greg/apps/build/tmp/pillow/parser.o /home/greg/apps/build/tmp/pillow/http_parser.o /home/greg/apps/build/tmp/pillow/HttpServer.o /home/greg/apps/build/tmp/pillow/HttpHandler.o /home/greg/apps/build/tmp/pillow/HttpHandlerQtScript.o /home/greg/apps/build/tmp/pillow/HttpHelpers.o /home/greg/apps/build/tmp/pillow/HttpsServer.o /home/greg/apps/build/tmp/pillow/HttpHandlerSimpleRouter.o /home/greg/apps/build/tmp/pillow/HttpConnection.o /home/greg/apps/build/tmp/pillow/HttpHandlerProxy.o /home/greg/apps/build/tmp/pillow/HttpClient.o /home/greg/apps/build/tmp/pillow/HttpHeader.o /home/greg/apps/build/tmp/pillow/moc_HttpServer.o /home/greg/apps/build/tmp/pillow/moc_HttpHandler.o /home/greg/apps/build/tmp/pillow/moc_HttpHandlerQtScript.o /home/greg/apps/build/tmp/pillow/moc_HttpsServer.o /home/greg/apps/build/tmp/pillow/moc_HttpHandlerSimpleRouter.o /home/greg/apps/build/tmp/pillow/moc_HttpConnection.o /home/greg/apps/build/tmp/pillow/moc_HttpHandlerProxy.o /home/greg/apps/build/tmp/pillow/moc_HttpClient.o make[2]: Leaving directory '/home/greg/apps/ElMaven/3rdparty/libpillow' cd libpls/ && ( test -e Makefile || /home/greg/anaconda3/bin/qmake -o Makefile /home/greg/apps/ElMaven/3rdparty/libpls/libpls.pro CONFIG+=release ) && make -f Makefile make[2]: Entering directory '/home/greg/apps/ElMaven/3rdparty/libpls' compiling pls.cpp compiling utility.cpp rm -f /home/greg/apps/build/libs/libpls.a ar cqs /home/greg/apps/build/libs/libpls.a /home/greg/apps/build/tmp/pls/pls.o /home/greg/apps/build/tmp/pls/utility.o make[2]: Leaving directory '/home/greg/apps/ElMaven/3rdparty/libpls' cd Logger/ && ( test -e Makefile || /home/greg/anaconda3/bin/qmake -o Makefile /home/greg/apps/ElMaven/3rdparty/Logger/Logger.pro CONFIG+=release ) && make -f Makefile make[2]: Entering directory '/home/greg/apps/ElMaven/3rdparty/Logger' g++ -c -pipe -std=c++11 -O2 -fPIC -Wall -W -D_REENTRANT -DQT_NO_DEBUG -DQT_GUI_LIB -DQT_CORE_LIB -I. -Ispdlog -I/home/greg/anaconda3/include/qt -I/home/greg/anaconda3/include/qt/QtGui -I/home/greg/anaconda3/include/qt/QtCore -I/home/greg/apps/build/tmp/logger -I/home/greg/anaconda3/mkspecs/linux-g++ -o /home/greg/apps/build/tmp/logger/elmavenlogger.o elmavenlogger.cpp rm -f /home/greg/apps/build/libs/libLogger.a ar cqs /home/greg/apps/build/libs/libLogger.a /home/greg/apps/build/tmp/logger/elmavenlogger.o make[2]: Leaving directory '/home/greg/apps/ElMaven/3rdparty/Logger' cd ErrorHandling/ && ( test -e Makefile || /home/greg/anaconda3/bin/qmake -o Makefile /home/greg/apps/ElMaven/3rdparty/ErrorHandling/ErrorHandling.pro CONFIG+=release ) && make -f Makefile make[2]: Entering directory '/home/greg/apps/ElMaven/3rdparty/ErrorHandling' g++ -c -pipe -std=c++11 -O2 -fPIC -Wall -W -D_REENTRANT -DQT_NO_DEBUG -DQT_GUI_LIB -DQT_CORE_LIB -I. -I../Logger -I/home/greg/anaconda3/include/qt -I/home/greg/anaconda3/include/qt/QtGui -I/home/greg/anaconda3/include/qt/QtCore -I/home/greg/apps/build/tmp/error_handling -I/home/greg/anaconda3/mkspecs/linux-g++ -o /home/greg/apps/build/tmp/error_handling/MavenException.o MavenException.cpp g++ -c -pipe -std=c++11 -O2 -fPIC -Wall -W -D_REENTRANT -DQT_NO_DEBUG -DQT_GUI_LIB -DQT_CORE_LIB -I. -I../Logger -I/home/greg/anaconda3/include/qt -I/home/greg/anaconda3/include/qt/QtGui -I/home/greg/anaconda3/include/qt/QtCore -I/home/greg/apps/build/tmp/error_handling -I/home/greg/anaconda3/mkspecs/linux-g++ -o /home/greg/apps/build/tmp/error_handling/errorcodes.o errorcodes.cpp rm -f /home/greg/apps/build/libs/libErrorHandling.a ar cqs /home/greg/apps/build/libs/libErrorHandling.a /home/greg/apps/build/tmp/error_handling/MavenException.o /home/greg/apps/build/tmp/error_handling/errorcodes.o make[2]: Leaving directory '/home/greg/apps/ElMaven/3rdparty/ErrorHandling' cd libsvm/ && ( test -e Makefile || /home/greg/anaconda3/bin/qmake -o Makefile /home/greg/apps/ElMaven/3rdparty/libsvm/libsvm.pro CONFIG+=release ) && make -f Makefile make[2]: Entering directory '/home/greg/apps/ElMaven/3rdparty/libsvm' g++ -c -pipe -O2 -fPIC -Wall -W -D_REENTRANT -DQT_NO_DEBUG -DQT_GUI_LIB -DQT_CORE_LIB -I. -I. -I/home/greg/anaconda3/include/qt -I/home/greg/anaconda3/include/qt/QtGui -I/home/greg/anaconda3/include/qt/QtCore -I/home/greg/apps/build/tmp/svm -I/home/greg/anaconda3/mkspecs/linux-g++ -o /home/greg/apps/build/tmp/svm/svm.o svm.cpp rm -f /home/greg/apps/build/libs/libsvm.a ar cqs /home/greg/apps/build/libs/libsvm.a /home/greg/apps/build/tmp/svm/svm.o make[2]: Leaving directory '/home/greg/apps/ElMaven/3rdparty/libsvm' cd NimbleDSP/ && ( test -e Makefile || /home/greg/anaconda3/bin/qmake -o Makefile /home/greg/apps/ElMaven/3rdparty/NimbleDSP/NimbleDSP.pro CONFIG+=release ) && make -f Makefile make[2]: Entering directory '/home/greg/apps/ElMaven/3rdparty/NimbleDSP' cd src/ && ( test -e Makefile || /home/greg/anaconda3/bin/qmake -o Makefile /home/greg/apps/ElMaven/3rdparty/NimbleDSP/src/src.pro CONFIG+=release ) && make -f Makefile make[3]: Entering directory '/home/greg/apps/ElMaven/3rdparty/NimbleDSP/src' gcc -c -pipe -O2 -fPIC -w -I. -I../../../src -isystem /usr/local/include -I/home/greg/anaconda3/mkspecs/linux-g++ -o /home/greg/apps/build/tmp/nimble/kiss_fft.o kiss_fft.c gcc -c -pipe -O2 -fPIC -w -I. -I../../../src -isystem /usr/local/include -I/home/greg/anaconda3/mkspecs/linux-g++ -o /home/greg/apps/build/tmp/nimble/kiss_fftr.o kiss_fftr.c rm -f /home/greg/apps/build/libs/libNimbleDSP.a ar cqs /home/greg/apps/build/libs/libNimbleDSP.a /home/greg/apps/build/tmp/nimble/kiss_fft.o /home/greg/apps/build/tmp/nimble/kiss_fftr.o make[3]: Leaving directory '/home/greg/apps/ElMaven/3rdparty/NimbleDSP/src' make[2]: Leaving directory '/home/greg/apps/ElMaven/3rdparty/NimbleDSP' cd libmgf/ && ( test -e Makefile || /home/greg/anaconda3/bin/qmake -o Makefile /home/greg/apps/ElMaven/3rdparty/libmgf/libmgf.pro CONFIG+=release ) && make -f Makefile make[2]: Entering directory '/home/greg/apps/ElMaven/3rdparty/libmgf' cd src/ && ( test -e Makefile || /home/greg/anaconda3/bin/qmake -o Makefile /home/greg/apps/ElMaven/3rdparty/libmgf/src/src.pro CONFIG+=release ) && make -f Makefile make[3]: Entering directory '/home/greg/apps/ElMaven/3rdparty/libmgf/src' bash parsergen.sh g++ -c -pipe -std=c++11 -O2 -fPIC -std=gnu++11 -w -I. -I. -I../mgf -isystem /usr/local/include -I/home/greg/anaconda3/mkspecs/linux-g++ -o /home/greg/apps/build/tmp/libmgf/MgfFile.o MgfFile.cpp g++ -c -pipe -std=c++11 -O2 -fPIC -std=gnu++11 -w -I. -I. -I../mgf -isystem /usr/local/include -I/home/greg/anaconda3/mkspecs/linux-g++ -o /home/greg/apps/build/tmp/libmgf/MgfHeader.o MgfHeader.cpp g++ -c -pipe -std=c++11 -O2 -fPIC -std=gnu++11 -w -I. -I. -I../mgf -isystem /usr/local/include -I/home/greg/anaconda3/mkspecs/linux-g++ -o /home/greg/apps/build/tmp/libmgf/MgfSpectrum.o MgfSpectrum.cpp The scanner and parser are up to date. g++ -c -pipe -std=c++11 -O2 -fPIC -std=gnu++11 -w -I. -I. -I../mgf -isystem /usr/local/include -I/home/greg/anaconda3/mkspecs/linux-g++ -o /home/greg/apps/build/tmp/libmgf/Driver.o Driver.cpp g++ -c -pipe -std=c++11 -O2 -fPIC -std=gnu++11 -w -I. -I. -I../mgf -isystem /usr/local/include -I/home/greg/anaconda3/mkspecs/linux-g++ -o /home/greg/apps/build/tmp/libmgf/Parser.o Parser.cpp g++ -c -pipe -std=c++11 -O2 -fPIC -std=gnu++11 -w -I. -I. -I../mgf -isystem /usr/local/include -I/home/greg/anaconda3/mkspecs/linux-g++ -o /home/greg/apps/build/tmp/libmgf/Scanner.o Scanner.cpp rm -f /home/greg/apps/build/libs/libmgf.a ar cqs /home/greg/apps/build/libs/libmgf.a /home/greg/apps/build/tmp/libmgf/Driver.o /home/greg/apps/build/tmp/libmgf/MgfFile.o /home/greg/apps/build/tmp/libmgf/MgfHeader.o /home/greg/apps/build/tmp/libmgf/MgfSpectrum.o /home/greg/apps/build/tmp/libmgf/Parser.o /home/greg/apps/build/tmp/libmgf/Scanner.o make[3]: Leaving directory '/home/greg/apps/ElMaven/3rdparty/libmgf/src' make[2]: Leaving directory '/home/greg/apps/ElMaven/3rdparty/libmgf' make[1]: Leaving directory '/home/greg/apps/ElMaven/3rdparty' cd src/ && ( test -e Makefile || /home/greg/anaconda3/bin/qmake -o Makefile /home/greg/apps/ElMaven/src/src.pro CONFIG+=release ) && make -f Makefile make[1]: Entering directory '/home/greg/apps/ElMaven/src' cd core/libmaven/ && ( test -e Makefile || /home/greg/anaconda3/bin/qmake -o Makefile /home/greg/apps/ElMaven/src/core/libmaven/libmaven.pro CONFIG+=release ) && make -f Makefile make[2]: Entering directory '/home/greg/apps/ElMaven/src/core/libmaven' compiling base64.cpp compiling mzMassCalculator.cpp compiling mzPatterns.cpp compiling mzSample.cpp compiling mzUtils.cpp compiling statistics.cpp compiling elementMass.cpp compiling mzFit.cpp compiling mzAligner.cpp compiling mzMassSlicer.cpp compiling PeakGroup.cpp compiling Fragment.cpp compiling EIC.cpp compiling Scan.cpp compiling SRMList.cpp compiling Peak.cpp compiling Compound.cpp compiling savgol.cpp compiling SavGolSmoother.cpp compiling PeakDetector.cpp compiling mavenparameters.cpp compiling classifier.cpp compiling classifierNaiveBayes.cpp compiling classifierNeuralNet.cpp compiling csvreports.cpp compiling comparesampleslogic.cpp compiling isotopelogic.cpp compiling eiclogic.cpp compiling databases.cpp compiling Peptide.cpp compiling PolyAligner.cpp compiling jsonReports.cpp compiling masscutofftype.cpp compiling peakFiltering.cpp compiling groupFiltering.cpp compiling isotopeDetection.cpp compiling datastructures/mzSlice.cpp compiling groupClassifier.cpp compiling groupFeatures.cpp compiling svmPredictor.cpp compiling zlib.cpp rm -f /home/greg/apps/build/libs/libmaven.a ar cqs /home/greg/apps/build/libs/libmaven.a /home/greg/apps/build/tmp/maven/base64.o /home/greg/apps/build/tmp/maven/mzMassCalculator.o /home/greg/apps/build/tmp/maven/mzPatterns.o /home/greg/apps/build/tmp/maven/mzSample.o /home/greg/apps/build/tmp/maven/mzUtils.o /home/greg/apps/build/tmp/maven/statistics.o /home/greg/apps/build/tmp/maven/elementMass.o /home/greg/apps/build/tmp/maven/mzFit.o /home/greg/apps/build/tmp/maven/mzAligner.o /home/greg/apps/build/tmp/maven/mzMassSlicer.o /home/greg/apps/build/tmp/maven/PeakGroup.o /home/greg/apps/build/tmp/maven/Fragment.o /home/greg/apps/build/tmp/maven/EIC.o /home/greg/apps/build/tmp/maven/Scan.o /home/greg/apps/build/tmp/maven/SRMList.o /home/greg/apps/build/tmp/maven/Peak.o /home/greg/apps/build/tmp/maven/Compound.o /home/greg/apps/build/tmp/maven/savgol.o /home/greg/apps/build/tmp/maven/SavGolSmoother.o /home/greg/apps/build/tmp/maven/PeakDetector.o /home/greg/apps/build/tmp/maven/mavenparameters.o /home/greg/apps/build/tmp/maven/classifier.o /home/greg/apps/build/tmp/maven/classifierNaiveBayes.o /home/greg/apps/build/tmp/maven/classifierNeuralNet.o /home/greg/apps/build/tmp/maven/csvreports.o /home/greg/apps/build/tmp/maven/comparesampleslogic.o /home/greg/apps/build/tmp/maven/isotopelogic.o /home/greg/apps/build/tmp/maven/eiclogic.o /home/greg/apps/build/tmp/maven/databases.o /home/greg/apps/build/tmp/maven/Peptide.o /home/greg/apps/build/tmp/maven/PolyAligner.o /home/greg/apps/build/tmp/maven/jsonReports.o /home/greg/apps/build/tmp/maven/masscutofftype.o /home/greg/apps/build/tmp/maven/peakFiltering.o /home/greg/apps/build/tmp/maven/groupFiltering.o /home/greg/apps/build/tmp/maven/isotopeDetection.o /home/greg/apps/build/tmp/maven/mzSlice.o /home/greg/apps/build/tmp/maven/groupClassifier.o /home/greg/apps/build/tmp/maven/groupFeatures.o /home/greg/apps/build/tmp/maven/svmPredictor.o /home/greg/apps/build/tmp/maven/zlib.o make[2]: Leaving directory '/home/greg/apps/ElMaven/src/core/libmaven' cd common/ && ( test -e Makefile || /home/greg/anaconda3/bin/qmake -o Makefile /home/greg/apps/ElMaven/src/common/common.pro CONFIG+=release ) && make -f Makefile make[2]: Entering directory '/home/greg/apps/ElMaven/src/common' compiling downloadmanager.cpp compiling logger.cpp compiling analytics.cpp compiling mixpanel.cpp In file included from mixpanel.cpp:11:0: sentry.h:50:10: fatal error: uuid/uuid.h: No such file or directory

include <uuid/uuid.h>

      ^~~~~~~~~~~~~

compilation terminated. Makefile:1155: recipe for target '/home/greg/apps/build/tmp/common/mixpanel.o' failed make[2]: [/home/greg/apps/build/tmp/common/mixpanel.o] Error 1 make[2]: Waiting for unfinished jobs.... analytics.cpp: In member function ‘void Analytics::httpPost(QUrlQuery)’: analytics.cpp:108:20: warning: unused variable ‘reply’ [-Wunused-variable] QNetworkReply reply = manager->post(req, data); ^~~~~ In file included from downloadmanager.cpp:6:0: downloadmanager.h: In constructor ‘DownloadManager::DownloadManager()’: downloadmanager.h:41:20: warning: ‘DownloadManager::_reply’ will be initialized after [-Wreorder] QNetworkReply _reply; ^~ downloadmanager.h:19:10: warning: ‘bool DownloadManager::err’ [-Wreorder] bool err; ^~~ downloadmanager.cpp:10:1: warning: when initialized here [-Wreorder] DownloadManager::DownloadManager(): ^~~~~~~ make[2]: Leaving directory '/home/greg/apps/ElMaven/src/common' Makefile:92: recipe for target 'sub-common-make_first-ordered' failed make[1]: [sub-common-make_first-ordered] Error 2 make[1]: Leaving directory '/home/greg/apps/ElMaven/src' Makefile:89: recipe for target 'sub-src-make_first-ordered' failed make: [sub-src-make_first-ordered] Error 2

saifulbkhan commented 4 years ago

Hi @greg-harhay,

Sorry you had to face this issue. This made it to our develop branch some time ago. I will make fix this soon, but until then can you please try wrapping the #include "sentry.h" code in file src/common/mixpanel.cpp at line 11 as:

#ifdef __OSX_AVAILABLE
#ifndef DEBUG
#include "sentry.h"
#endif
#endif

and see if compilation proceeds for you?

greg-harhay commented 4 years ago

Wrapping #include "sentry.h" with the code in src/common/mixpanel.cpp solved the problem in El-MAVEN v0.9.1-23. Up and running now. Thank you