Linking problem on OS with RooClassFactory

ROOT
1

Dear Experts,
I’ve tried on my MAC the RooClassFactory.h in place of RooGenericPdf.h
The code compiles, but when I try to run it I get the following message:

Can you please help me to figure this out ?
Many thanks,

  • Mauro.

[ExtractYield::MakeAngWithEffPDF] @@@ 2D angularefficiency p.d.f. @@@
(9/16 * (2/3((FsS) + (AsS20.89sqrt(3(FsS)(1-(FsS))(1/2 + TMath::ATan(FlS)/TMath::Pi())))CosThetaKArb) * (1-CosThetaMuArbCosThetaMuArb) + (1-(FsS)) * (2*(1/2 + TMath::ATan(FlS)/TMath::Pi())CosThetaKArbCosThetaKArb * (1-CosThetaMuArbCosThetaMuArb) + 1/2(1-(1/2 + TMath::ATan(FlS)/TMath::Pi())) * (1-CosThetaKArbCosThetaKArb) * (1+CosThetaMuArbCosThetaMuArb) + 4/3*(3/4*(1 - (1/2 + TMath::ATan(FlS)/TMath::Pi())) * 2TMath::ATan(AfbS)/TMath::Pi()) * (1-CosThetaKArbCosThetaKArb) * CosThetaMuArb))) * ((P0 + P1CosThetaKArb + P2CosThetaKArbCosThetaKArb + P3CosThetaKArbCosThetaKArbCosThetaKArb) + (P4 + P5CosThetaKArb + P6CosThetaKArbCosThetaKArb + P7CosThetaKArbCosThetaKArbCosThetaKArb) * CosThetaMuArb + (P8 + P9CosThetaKArb + P10CosThetaKArbCosThetaKArb + P11CosThetaKArbCosThetaKArbCosThetaKArb) * CosThetaMuArbCosThetaMuArb + (P12 + P13CosThetaKArb + P14CosThetaKArbCosThetaKArb + P15CosThetaKArbCosThetaKArbCosThetaKArb) * CosThetaMuArbCosThetaMuArbCosThetaMuArb + (P16 + P17CosThetaKArb + P18CosThetaKArbCosThetaKArb + P19CosThetaKArbCosThetaKArbCosThetaKArb) * CosThetaMuArbCosThetaMuArbCosThetaMuArbCosThetaMuArb + (P20 + P21CosThetaKArb + P22CosThetaKArbCosThetaKArb + P23CosThetaKArbCosThetaKArbCosThetaKArb) * CosThetaMuArbCosThetaMuArbCosThetaMuArbCosThetaMuArbCosThetaMuArb)
Info in TMacOSXSystem::ACLiC: creating shared library /Users/dinardo/Documents/MyDocuments/CMS/PhysicsAnalysis/B0Analysis/B0KstMuMu/plugins/RooAngleSPdf_cxx.so
ld: can’t link with bundle (MH_BUNDLE) only dylibs (MH_DYLIB) file ‘/System/Library/Extensions/AppleIntelHD5000GraphicsGLDriver.bundle/Contents/MacOS/AppleIntelHD5000GraphicsGLDriver’ for architecture x86_64
clang: error: linker command failed with exit code 1 (use -v to see invocation)
Error in : Compilation failed!

*** Break *** segmentation violation
Generating stack trace…
0x000000010e22c636 in RooClassFactory::makePdfInstance(char const*, char const*, char const*, RooArgList const&, char const*) (in libRooFitCore.so) (RooClassFactory.cxx:332)
0x000000010e22c587 in RooClassFactory::makePdfInstance(char const*, char const*, RooArgList const&, char const*) (in libRooFitCore.so) (RooClassFactory.cxx:293)
0x000000010c2cbc72 in MakeAngWithEffPDF(TF2*, RooRealVar*, RooRealVar*, unsigned int, bool, RooArgSet*, RooArgSet*, std::__1::vector<double, std::__1::allocator >, int, bool) (in ExtractYield) + 9426
0x000000010c31e60c in InstantiateMass2AnglesFit(RooAbsPdf**, bool, RooRealVar, RooRealVar*, RooRealVar*, std::__1::basic_string<char, std::__1::char_traits, std::__1::allocator >, unsigned int, std::__1::vecto
0x000000010c33a09d in IterativeMass2AnglesFitq2Bins(RooDataSet*, bool, double, double, double, RooRealVar*, RooRealVar*, RooRealVar*, int, unsigned int, std::__1::vector<TH1D*, std::__1::allocator<TH1D*> >*, std::__1::vect
0x000000010c346b30 in main (in ExtractYield) + 26096
0x00007fff93ec7255 in start (in libdyld.dylib) + 1

OS version: 10.12.1

clang version:
Apple LLVM version 8.0.0 (clang-800.0.42.1)
Target: x86_64-apple-darwin16.1.0
Thread model: posix
InstalledDir: /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin

2

Hi,

Which ROOT version is that? (and sorry for the late reply - sometimes posts slip through the cracks…)

Cheers, Axel.

3

Hi Axel,
no problem.

I’m using root: root_v6.06.08

Cheers,

  • Mauro.
4

Hi,

Before RooAngleSPdf_cxx.so gets created (I suppose you have a “RooAngleSPdf.cxx+” somewhere), could you send the output of

printf("%s\n", gInterpreter->GetSharedLibs())

Cheers, Axel.

5

Hi Alex,
from root interactive session i get:

root [0] printf("%s\n", gInterpreter->GetSharedLibs())
/Users/dinardo/root/myBuild/lib/libRint.so /Users/dinardo/root/myBuild/lib/libCore.so /usr/lib/libz.1.dylib /usr/lib/libenergytrace.dylib /usr/lib/libScreenReader.dylib /usr/lib/libxml2.2.dylib /usr/lib/libarchive.2.dylib /usr/lib/libcoretls.dylib /usr/lib/libcoretls_cfhelpers.dylib /usr/lib/libxar.1.dylib /usr/lib/libsqlite3.dylib /usr/lib/libbz2.1.0.dylib /usr/lib/liblzma.5.dylib /usr/lib/libnetwork.dylib /usr/lib/libpcap.A.dylib /usr/lib/libmecabra.dylib /usr/lib/libcompression.dylib /usr/lib/libiconv.2.dylib /usr/lib/libheimdal-asn1.dylib /usr/lib/libmarisa.dylib /usr/lib/libChineseTokenizer.dylib /usr/lib/libcmph.dylib /usr/lib/libxslt.1.dylib /usr/lib/libate.dylib /usr/lib/libFosl_dynamic.dylib /Users/dinardo/root/myBuild/lib/libCling.so /Users/dinardo/root/myBuild/lib/libRIO.so /usr/lib/libncurses.5.4.dylib /Users/dinardo/root/myBuild/lib/libThread.so /Users/dinardo/root/myBuild/lib/libMathCore.so
(int) 918
root [1]

Cheers,

  • Mauro.
6

Hi,

Thanks - I’ll have to debug. This is not related to RooClassFactory but “simply” a question of compiling RooAngleSPdf.cxx after “too many” libraries have been loaded.

I try to filter the libraries we pass to the linker.

Cheers, Axel.

7

Axel,
The problem has to do with filtering libraries that are BUNDLES and cannot be linked. Some filtering was done with the commit github.com/root-mirror/root/com … 234ad01c3a
We need to extend it and ensure that the following library is also filtered. /System/Library/Extensions/AppleIntelHD5000GraphicsGLDriver.bundle/Contents/MacOS/AppleIntelHD5000GraphicsGLDriver

Pere

8

Hi All,
many thanks for looking into this.

So, my understanding is that I need to wait for
a new version of ROOT where the problem
should be fixed. Is this correct ?

  • Mauro.
9

We will try to provide you with a patch. But, before I would like to know what is the application you run to obtain the initial error? Is this the root executable? or something else?
Pere

10

Hi Pere,
it’s a standalone program, i.e. it’s a compiled program.

The instruction in the code are like:

I’m substituting this RooGenericPdf line:
AnglesPDF = new RooGenericPdf(“AngleS”,myString.str().c_str(),RooArgSet(*VarsAng,*VarsPoly));
with:
AnglesPDF = RooClassFactory::makePdfInstance(“AngleS”,myString.str().c_str(),RooArgSet(*VarsAng,*VarsPoly));

Cheers,

  • Mauro.
11

Can you please post the output of

otool -L <your standalone program>
12

Hi Mato,
probably I’m doing something wrong because I get the message:

root [0] otool -L ExtractYield.cc
ROOT_prompt_0:1:9: error: expected ‘;’ after expression
otool -L ExtractYield.cc
^
;
ROOT_prompt_0:1:10: error: use of undeclared identifier 'ExtractYield’
otool -L ExtractYield.cc
^
root [1] otool -L ExtractYield
ROOT_prompt_1:1:9: error: expected ‘;’ after expression
otool -L ExtractYield
^
;
ROOT_prompt_1:1:10: error: use of undeclared identifier 'ExtractYield’
otool -L ExtractYield

Cheers,

  • Mauro.
13

Hi Mauro,
Execute the command in the shell (directly in the Terminal).
Pere

14

Hi,
here it is:

iHulk:plugins dinardo$ otool -L ExtractYield
ExtractYield:
@rpath/libGui.so (compatibility version 0.0.0, current version 0.0.0)
@rpath/libCore.so (compatibility version 0.0.0, current version 0.0.0)
@rpath/libRIO.so (compatibility version 0.0.0, current version 0.0.0)
@rpath/libNet.so (compatibility version 0.0.0, current version 0.0.0)
@rpath/libHist.so (compatibility version 0.0.0, current version 0.0.0)
@rpath/libGraf.so (compatibility version 0.0.0, current version 0.0.0)
@rpath/libGraf3d.so (compatibility version 0.0.0, current version 0.0.0)
@rpath/libGpad.so (compatibility version 0.0.0, current version 0.0.0)
@rpath/libTree.so (compatibility version 0.0.0, current version 0.0.0)
@rpath/libRint.so (compatibility version 0.0.0, current version 0.0.0)
@rpath/libPostscript.so (compatibility version 0.0.0, current version 0.0.0)
@rpath/libMatrix.so (compatibility version 0.0.0, current version 0.0.0)
@rpath/libPhysics.so (compatibility version 0.0.0, current version 0.0.0)
@rpath/libMathCore.so (compatibility version 0.0.0, current version 0.0.0)
@rpath/libThread.so (compatibility version 0.0.0, current version 0.0.0)
@rpath/libMultiProc.so (compatibility version 0.0.0, current version 0.0.0)
/usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current version 1238.0.0)
@rpath/libMinuit.so (compatibility version 0.0.0, current version 0.0.0)
@rpath/libRooFit.so (compatibility version 0.0.0, current version 0.0.0)
@rpath/libRooFitCore.so (compatibility version 0.0.0, current version 0.0.0)
@rpath/libFoam.so (compatibility version 0.0.0, current version 0.0.0)
/usr/lib/libc++.1.dylib (compatibility version 1.0.0, current version 307.4.0)

Cheers,

  • Mauro.
15

Dear All,
I was wondering whether you had a chance to look into this.

Many thanks,

  • Mauro.
16

Added bug in JIRA sft.its.cern.ch/jira/browse/ROOT-8511

17

Dear All,
do you have any news about this issue ?

Many thanks and kind regards,

  • Mauro.
18

Dear All,
do you have any news about this issue ?

Many thanks and kind regards,

  • Mauro.
19

Finally fixed in the master and v6-08; it will be part of v6.08/06 to be released this week!

Apologies for the long delay…

Axel.

20

Hi,
many thanks.

One quick question: how can I link my program to library generated with the command:

AnglesPDF = RooClassFactory::makePdfInstance("AngleS",myString.str().c_str(),RooArgSet(*VarsAng,*VarsPoly));

The command creates the following files:

RooAngleSPdf.cxx
RooAngleSPdf.h
RooAngleSPdf_cxx.d
RooAngleSPdf_cxx.so
RooAngleSPdf_cxx_ACLiC_dict_rdict.pcm

How can then compile another program that links this library ?
in clang++ the option
.L . -l:$(wildcard *_cxx.so)
does not work.

Many thanks for your support.
Kind regards,

  • Mauro.