<html><head></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">Hi Alex,<div><br></div><div>We have tested subread on both 32-bit and 64-bit Intel and AMD platforms and it works fine (the gcc flags you mentioned were all included). So I do not know what caused the installation failure. Maybe you can show us the errors you have encountered?</div><div><br></div><div>Currently, Subread only supports AMD and Intel architectures and we do not have a plan to support other platforms such as ARM.</div><div><br></div><div>Best regards,</div><div>Wei</div><div><br><div><div>On May 11, 2015, at 5:34 PM, Alex Mestiashvili wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite">
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Dear Dr. Wei Shi, <br>
<br>
Debian supports many CPU architectures and building of subread
failed on some of these architectures.<br>
<br>
1. Due to quite specific -mtune and -mmmx -msse* gcc flags, subread
failed to build almost on any architecture except amd64.<br>
This issue was fixed by removing -mtune and -mmmx -msse* flags from
the src/Makefile.Linux. <br>
<a class="moz-txt-link-freetext" href="http://anonscm.debian.org/cgit/debian-med/subread.git/tree/debian/patches/gcc_flags_cleanup.patch">http://anonscm.debian.org/cgit/debian-med/subread.git/tree/debian/patches/gcc_flags_cleanup.patch</a><br>
<br>
2. We still have an issue, now with exactSNP, please see the bug
report below.<br>
<br>
Thank you, <br>
Alex<br>
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<td>[Debian-med-packaging] Bug#784929: subread: FTBFS on
arm64, armel, armhf, ...</td>
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<td>Sun, 10 May 2015 19:54:01 +0000</td>
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<td>Edmund Grimley Evans
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<td>Sun, 10 May 2015 20:51:41 +0100</td>
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<td>Edmund Grimley Evans
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<td>Edmund Grimley Evans
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<br>
<pre>Source: subread
Version: 1.4.6-p2+dfsg-2
It failed to build on several architectures:
<a class="moz-txt-link-freetext" href="https://buildd.debian.org/status/package.php?p=subread&suite=sid">https://buildd.debian.org/status/package.php?p=subread&suite=sid</a>
There seems to be a problem with (unsigned) char. See this file, for
example:
<a class="moz-txt-link-freetext" href="https://sources.debian.net/src/subread/1.4.6-p2%2Bdfsg-2/src/SNPCalling.c/">https://sources.debian.net/src/subread/1.4.6-p2%2Bdfsg-2/src/SNPCalling.c/</a>
This line:
while ((c = getopt_long (argc, argv, "7:N:a:i:g:o:bQ:p:f:n:r:x:w:s:t:T:v4",snp_long_options, &optindex))!=-1)
The function getopt_long returns int, but the value is assigned to a
char c, which is unsigned on ARM architectures, so it will never be
equal to -1. That is probably the immediate cause of the failure.
However, there may be other char-related problems in there. I noticed,
for example, that mask_snp_bitmap may be incorrect according to the C
standard (signed overflow).
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</pre>
<br>
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<br>
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