# Slicer superbuild failing due to out-dated third party libraries: VTK and curl

**URL:** <https://discourse.slicer.org/t/slicer-superbuild-failing-due-to-out-dated-third-party-libraries-vtk-and-curl/3410>\
**Category:** Development\
**Tags:** build\
**Created:** [July 8, 2018, 4:07am UTC](https://discourse.slicer.org/t/slicer-superbuild-failing-due-to-out-dated-third-party-libraries-vtk-and-curl/3410 "2018-07-08T04:07:07Z")\
**Posts on this page:** 1\
**Page:** 1

<div class="post-metadata">

**Author:** ![phcerdan](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/phcerdan/32/1559_2.png) [@phcerdan](https://discourse.slicer.org/u/phcerdan)\
**Post date:** [July 8, 2018, 4:07am UTC](https://discourse.slicer.org/t/slicer-superbuild-failing-due-to-out-dated-third-party-libraries-vtk-and-curl/3410/1 "2018-07-08T04:07:07Z")

</div>

Using Archlinux with gcc 8.1.1, the Slicer superbuild with VTKv9 and Qt5 is failing in the following packages: VTK, python, and curl.

* * *

- VTK compiling error is related with HDF5, that has been solved upstream, but Slicer branch/tag has to be updated. This is the branch created to merge in the Slicer/vtk fork pointing to VTK master: [https://github.com/phcerdan/vtk/tree/slicer-v9.0.0-2018-07-06-982ec1c561](https://github.com/phcerdan/vtk/tree/slicer-v9.0.0-2018-07-06-982ec1c561)

* * *

- Current curl version in slicer is failing, with error:

```auto
Software/Slicer/build-relwithdebinfo/curl/lib/ssluse.c:1957:45: error: dereferencing pointer to incomplete type ‘X509_EXTENSION’ {aka ‘struct X509_extension_st’}
       M_ASN1_OCTET_STRING_print(bio_out, ext->value);
                                             ^~
Software/Slicer/build-relwithdebinfo/curl/lib/ssluse.c: In function ‘get_cert_chain’:
Software/Slicer/build-relwithdebinfo/curl/lib/ssluse.c:2114:13: error: dereferencing pointer to incomplete type ‘X509’ {aka ‘struct x509_st’}
     cinf = x->cert_info;
             ^~
/Software/Slicer/build-relwithdebinfo/curl/lib/ssluse.c:2116:30: error: dereferencing pointer to incomplete type ‘X509_CINF’ {aka ‘struct x509_cinf_st’}
     j = asn1_object_dump(cinf->signature->algorithm, bufp, CERTBUFFERSIZE);
                              ^~
Software/Slicer/build-relwithdebinfo/curl/lib/ssluse.c:2142:20: error: dereferencing pointer to incomplete type ‘EVP_PKEY’ {aka ‘struct evp_pkey_st’}
       switch(pubkey->type) {
                    ^~
[42/76] Building C object lib/CMakeFiles/libcurl.dir/imap.c.o
In file included from /usr/include/sys/types.h:25,
                 from lib/../include/curl/curlbuild.h:130,
                 from /home/phc/Software/Slicer/build-relwithdebinfo/curl/lib/curl_setup.h:125,
                 from /home/phc/Software/Slicer/build-relwithdebinfo/curl/lib/multi.c:23:
/usr/include/features.h:184:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
 # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
   ^ ~~~~~~
[45/76] Building C object lib/CMakeFiles/libcurl.dir/imap.c.o
ninja: build stopped: subcommand failed.
[140/200] Performing build step for 'curl'
FAILED: curl-prefix/src/curl-stamp/curl-build

```

curl-master works. There are three commits in the Slicer branch on top of a quite old curl-master, not sure if they are still relevant and have to be cherry-picked after the update: [https://github.com/slicer/curl/tree/curl-7\_34\_0-maint](https://github.com/slicer/curl/tree/curl-7_34_0-maint) @jcfr

* * *

Also current CTK tag: `f0386cba0dd62d728bca9a00a2c89bc0528ff768` generates this error, that is solved updating Slicer to use latest CTK with this PR merged: [https://github.com/commontk/CTK/pull/817](https://github.com/commontk/CTK/pull/817)

```auto
/Software/Slicer/build-relwithdebinfo/CTK/Libs/Visualization/VTK/Widgets/ctkVTKDiscretizableColorTransferWidget.cpp:378:45: error: invalid use of incomplete type ‘class vtkRenderWindowInteractor’
   self->ScalarsToColorsView->GetInteractor()->Render();
                                             ^~
In file included from /Software/Slicer/build-relwithdebinfo/CTK/Libs/Visualization/VTK/Widgets/ctkVTKDiscretizableColorTransferWidget.cpp:50:
/home/phc/Software/Slicer/build-relwithdebinfo/VTKv9/GUISupport/Qt/QVTKOpenGLWidget.h:31:7: note: forward declaration of ‘class vtkRenderWindowInteractor’
 class vtkRenderWindowInteractor;
Software/Slicer/build-relwithdebinfo/CTK/Libs/Visualization/VTK/Widgets/ctkVTKDiscretizableColorTransferWidget.cpp: In member function ‘void ctkVTKDiscretizableColorTransferWidget::onPaletteIndexChanged(vtkScalarsToColors*)’:
/Software/Slicer/build-relwithdebinfo/CTK/Libs/Visualization/VTK/Widgets/ctkVTKDiscretizableColorTransferWidget.cpp:756:42: error: invalid use of incomplete type ‘class vtkRenderWindowInteractor’
   d->ScalarsToColorsView->GetInteractor()->Render();
                                          ^~
In file included from /Software/Slicer/build-relwithdebinfo/CTK/Libs/Visualization/VTK/Widgets/ctkVTKDiscretizableColorTransferWidget.cpp:50:
/Software/Slicer/build-relwithdebinfo/VTKv9/GUISupport/Qt/QVTKOpenGLWidget.h:31:7: note: forward declaration of ‘class vtkRenderWindowInteractor’
 class vtkRenderWindowInteractor;

```

* * *

- And finally python is failing in the superbuild due to this reported bug:  
[https://github.com/python-cmake-buildsystem/python-cmake-buildsystem/issues/224](https://github.com/python-cmake-buildsystem/python-cmake-buildsystem/issues/224)

A workaround is to use system python with:

```auto
mkvirtualenv -p python2.7 slicer
workon slicer
pip install chardet appdirs packaging pyparsing smmap gitdb GitPython PyGithub nose numpy dicom couchdb

```

* * *

The cmake options for the workaround. Note that curl is latest in my system.

```bash
cmake -G Ninja ../Slicer-src \
-DSlicer_VTK_VERSION_MAJOR:STRING=9 \
-DSlicer_USE_SYSTEM_curl:BOOL=ON \
-DSlicer_USE_SYSTEM_python:BOOL=ON \
-DVTK_DIR:PATH=/path/VTKv9-master-build

```