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And for the lazier there are now CMake binaries for Linux i386 and x86_64.
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<div class=""><a href="https://cmake.org/download/" class="">https://cmake.org/download/</a><br class="">
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<div class="">On Aug 18, 2016, at 8:53 AM, Dženan Zukić <dzenanz@gmail.com> wrote:</div>
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Hi Marco,</div>
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as Matt said, you can build CMake from source and while configuring it turn CMAKE_USE_OPENSSL on. Then use it or you can even drop it in instead of the system one.</div>
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Regards,</div>
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Dženan</div>
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<div class="gmail_quote">On Thu, Aug 18, 2016 at 6:14 AM, Richard Beare<span class="Apple-converted-space"> </span><span dir="ltr" class=""><<a href="mailto:richard.beare@gmail.com" target="_blank" class="">richard.beare@gmail.com</a>></span><span class="Apple-converted-space"> </span>wrote:<br class="">
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<div dir="ltr" class="">A related problem, which I've never found a solution for, is that some cluster software (probably the curl library) is built without ssl support at a critical point. You may have the same issue. Maybe the configuration info for curl
will tell you one way or another whether this is the case and you can request a reinstall.</div>
<div class="HOEnZb">
<div class="h5">
<div class="gmail_extra"><br class="">
<div class="gmail_quote">On Thu, Aug 18, 2016 at 7:37 PM, marco giordano<span class="Apple-converted-space"> </span><span dir="ltr" class=""><<a href="mailto:marco.giord@gmail.com" target="_blank" class="">marco.giord@gmail.com</a>></span><span class="Apple-converted-space"> </span>wrote:<br class="">
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<div class="">Hi there,<span class="Apple-converted-space"> </span><br class="">
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I checked the internet connection on the node and seems fine (I can download with wget the<span class="Apple-converted-space"> </span><a href="https://midas3.kitware.com/midas/api/rest?method=midas.bitstream.download&checksum=2e115fe26e435e33b0d5c022e4490567&algorithm=MD5" rel="noreferrer" target="_blank" class="">https://midas3.kitware.com/mid<wbr class="">as/api/rest?method=midas.bitst<wbr class="">ream.download&checksum=2e115fe<wbr class="">26e435e33b0d5c022e4490567&algo<wbr class="">rithm=MD5</a>”).<br class="">
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</div>
I run the script<span class="Apple-converted-space"> </span><a href="https://github.com/conda-forge/cmake-feedstock/blob/master/recipe/SSLTest.cmake" rel="noreferrer" target="_blank" class="">SSLTest.cmake</a><span class="Apple-converted-space"> </span>but
it fails (it downloads a LICENSE file but it is empty):<br class="">
CMake Error at SSLTest.cmake:5 (file):<br class="">
file DOWNLOAD HASH mismatch<br class="">
<br class="">
for file: [/home/mgiordano/code/SimpleIT<wbr class="">K/LICENSE]<br class="">
expected hash: [f8c925402b90f74566f71e64eea7b<wbr class="">b9d83daac69cde71408ffd6c043be6<wbr class="">a4991]<br class="">
actual hash: [e3b0c44298fc1c149afbf4c8996fb<wbr class="">92427ae41e4649b934ca495991b785<wbr class="">2b855]<br class="">
status: [1;"Unsupported protocol"]<br class="">
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So I assume the HTTPS is not supported. Now if I understand correctly the alternative is to download the modules manually in $HOME/ExternalData and point to that folder through the variable ExternalData_OBJECT_STORES. The question is what do I need to download,
is that the only the two links above or there is more ? Is it maybe an option to change version of Cmake that can support that or/and how do I enable the support ?<br class="">
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Any help is appreciated.<br class="">
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Regards,<br class="">
</div>
Marco<span class="Apple-converted-space"> </span><br class="">
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<div class="gmail_quote">2016-08-17 16:51 GMT+02:00 Lowekamp, Bradley (NIH/NLM/LHC) [C]<span class="Apple-converted-space"> </span><span dir="ltr" class=""><<a href="mailto:blowekamp@mail.nih.gov" target="_blank" class="">blowekamp@mail.nih.gov</a>></span>:<br class="">
<blockquote class="gmail_quote" style="margin: 0px 0px 0px 0.8ex; border-left-width: 1px; border-left-color: rgb(204, 204, 204); border-left-style: solid; padding-left: 1ex;">
Hello!<br class="">
<br class="">
OK, so it looks like you are using the current master branch of SimpleITK. I know this because you have the latest SimpleITK feature where CMake downloads the Superbuild dependencies with the CMake “ExternalData” module. This enables some interesting options
for your situation.<br class="">
<br class="">
You are on a cluster. On compute clusters, frequently the nodes don’t have access to the internet. So when cmake tries to download the URLS below it times out or errors. You can verify this with some command like “wget<span class="Apple-converted-space"> </span><a href="https://midas3.kitware.com/midas/api/rest?method=midas.bitstream.download&checksum=2e115fe26e435e33b0d5c022e4490567&algorithm=MD5" rel="noreferrer" target="_blank" class="">https://midas3.kitware.com/mid<wbr class="">as/api/rest?method=midas.bitst<wbr class="">ream.download&checksum=2e115fe<wbr class="">26e435e33b0d5c022e4490567&algo<wbr class="">rithm=MD5</a>”.
The alternative is that your version of CMake doesn’t support HTTPS. Yo can test this with the following script:<span class="Apple-converted-space"> </span><a href="https://github.com/conda-forge/cmake-feedstock/blob/master/recipe/SSLTest.cmake" rel="noreferrer" target="_blank" class="">https://github.com/conda-forge<wbr class="">/cmake-feedstock/blob/master/r<wbr class="">ecipe/SSLTest.cmake</a><br class="">
<br class="">
Frequently, there are nodes on a cluster which have access to the internet for situations like this. You may be able to just use one of them.<br class="">
<br class="">
With the new ExternalData download module you may be able to pre-download these dependencies on the log in node. If you set the environment variable ExternalData_OBJECT_STORES to say “${HOME}/.ExternalData”, it will cache downloads to this directory. I assume
your home directory is available on the log in nodes. You can configure the SuperBuild there and build just the “SuperBuildSimpleITKSource” target. This will download the dependencies to the ExternaData directory. Then you can build in a cluster node, which
should use this cache.<br class="">
<br class="">
Also note when testing is enabled for the actual SimpleITK sub-project, a bunch of testing data is downloaded too. You can disable testing to avoid this, download and un-tar a Data archive [1], or replace the above procedure for this subproject.<br class="">
<br class="">
HTH,<br class="">
Brad<br class="">
<br class="">
[1]<span class="Apple-converted-space"> </span><a href="https://sourceforge.net/projects/simpleitk/files/SimpleITK/0.10.0/Source/" rel="noreferrer" target="_blank" class="">https://sourceforge.net/projec<wbr class="">ts/simpleitk/files/SimpleITK/0<wbr class="">.10.0/Source/</a><br class="">
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<br class="">
> On Aug 17, 2016, at 10:26 AM, marco giordano <<a href="mailto:marco.giord@gmail.com" target="_blank" class="">marco.giord@gmail.com</a>> wrote:<br class="">
><br class="">
> Hi there,<br class="">
><br class="">
> I just downloaded SimpleTK and I tried to build it on a linux cluster (running Scientific Linux release 6.5- Carbon) using the superbuild.<br class="">
><br class="">
> I use cmake 3.3.1. The Generation of build files is fine, then when I try to build i get this:<br class="">
><br class="">
> -- Fetching "<a href="http://midas3.kitware.com/midas/api/rest?method=midas.bitstream.download&checksum=2e115fe26e435e33b0d5c022e4490567&algorithm=MD5" rel="noreferrer" target="_blank" class="">http://midas3.kitware.com/mid<wbr class="">as/api/rest?method=midas.bitst<wbr class="">ream.download&checksum=2e115fe<wbr class="">26e435e33b0d5c022e4490567&algo<wbr class="">rithm=MD5</a>"<br class="">
> -- [download 100% complete]<br class="">
> -- Fetching "<a href="https://midas3.kitware.com/midas/api/rest?method=midas.bitstream.download&checksum=2e115fe26e435e33b0d5c022e4490567&algorithm=MD5" rel="noreferrer" target="_blank" class="">https://midas3.kitware.com/mi<wbr class="">das/api/rest?method=midas.bits<wbr class="">tream.download&checksum=2e115f<wbr class="">e26e435e33b0d5c022e4490567&alg<wbr class="">orithm=MD5</a>"<br class="">
> -- Fetching "<a href="https://itk.org/files/ExternalData/MD5/2e115fe26e435e33b0d5c022e4490567" rel="noreferrer" target="_blank" class="">https://itk.org/files/Externa<wbr class="">lData/MD5/2e115fe26e435e33b0d5<wbr class="">c022e4490567</a>"<br class="">
> CMake Error at /cm/shared/apps/cmake/3.3.1/in<wbr class="">stall/share/cmake-3.3/Modules/<wbr class="">ExternalData.cmake:1012 (message):<br class="">
> Object MD5=2e115fe26e435e33b0d5c022e4<wbr class="">490567 not found at:<br class="">
><br class="">
> <a href="http://midas3.kitware.com/midas/api/rest?method=midas.bitstream.download&checksum=2e115fe26e435e33b0d5c022e4490567&algorithm=MD5" rel="noreferrer" target="_blank" class="">http://midas3.kitware.com/mid<wbr class="">as/api/rest?method=midas.bitst<wbr class="">ream.download&checksum=2e115fe<wbr class="">26e435e33b0d5c022e4490567&algo<wbr class="">rithm=MD5</a><span class="Apple-converted-space"> </span>("Unsupported
protocol")<br class="">
> <a href="https://midas3.kitware.com/midas/api/rest?method=midas.bitstream.download&checksum=2e115fe26e435e33b0d5c022e4490567&algorithm=MD5" rel="noreferrer" target="_blank" class="">https://midas3.kitware.com/mi<wbr class="">das/api/rest?method=midas.bits<wbr class="">tream.download&checksum=2e115f<wbr class="">e26e435e33b0d5c022e4490567&alg<wbr class="">orithm=MD5</a><span class="Apple-converted-space"> </span>("Unsupported
protocol")<br class="">
> <a href="https://itk.org/files/ExternalData/MD5/2e115fe26e435e33b0d5c022e4490567" rel="noreferrer" target="_blank" class="">https://itk.org/files/Externa<wbr class="">lData/MD5/2e115fe26e435e33b0d5<wbr class="">c022e4490567</a><span class="Apple-converted-space"> </span>("Unsupported
protocol")<br class="">
> Call Stack (most recent call first):<br class="">
> /cm/shared/apps/cmake/3.3.1/i<wbr class="">nstall/share/cmake-3.3/Modules<wbr class="">/ExternalData.cmake:1034 (_ExternalData_download_object<wbr class="">)<br class="">
><br class="">
><br class="">
> make[2]: *** [ExternalData/.ExternalSource/<wbr class="">lua-5.1.5.tar.gz.md5-stamp] Error 1<br class="">
> make[1]: *** [CMakeFiles/SuperBuildSimpleIT<wbr class="">KSourceReal.dir/all] Error 2<br class="">
><br class="">
> Any help is welcome.<br class="">
> Regards<br class="">
> --<br class="">
> Marco<br class="">
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<br clear="all" class="">
<br class="">
--<span class="Apple-converted-space"> </span><br class="">
<div data-smartmail="gmail_signature" class="">Marco Giordano<br class="">
SKYPE:marcogiord81</div>
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