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DATE 2016-11-01

LEARN

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MESSAGE
DATE 2016-11-29
FROM Ruben Safir
SUBJECT Subject: [Learn] witmer lab ohio and 3d imaging
From learn-bounces-at-nylxs.com Tue Nov 29 19:48:22 2016
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Tue, 29 Nov 2016 19:48:20 -0500 (EST)
To: Christopher League , Hangout
, learn-at-nylxs.com
References: <32e7ca42-85ec-7594-f6cf-5d0a0bf3a8fc-at-mrbrklyn.com>
<87wpflx55t.fsf-at-contrapunctus.net>
From: Ruben Safir
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Date: Tue, 29 Nov 2016 19:48:20 -0500
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Subject: [Learn] witmer lab ohio and 3d imaging
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On 11/29/2016 06:00 PM, Christopher League wrote:
>
> First thing I try to do is to reduce the program to the SMALLEST program
> that reproduces the same error. You can think of it as binary search:
> delete (something like) HALF the program. If error is not reproduced,
> restore that half and delete the OTHER HALF. If error is reproduced,
> then delete half AGAIN. Continue until it's as small as possible. Here's
> the minimal crashing program I came up with:
>
> int main ( int argc, char *argv[] )
> {
> std::vector test {0};
> assert(test.size() == 1); // VECTOR HAS JUST ONE ELEMENT!
> for(int i = 0; i<10; i++ ){
> test[i] = i; // THEREFORE THIS IS AN ERROR WHEN i>0
> }
> return 0;
> }
>
> It exhibits the same error yours does: "free(): invalid next size
> (fast)". I added the `assert` to test my assumption about what the `{0}`
> initializer means.
>
> I tried going even further by unrolling and 'sampling' the loop:
>
> int main ( int argc, char *argv[] )
> {
> std::vector test {0};
> assert(test.size() == 1); // VECTOR HAS JUST ONE ELEMENT!
> test[0] = 0; // SAFE
> test[1] = 1; // ERR
> test[9] = 9; // ERR
> return 0;
> }
>
> But this -- unfortunately, IMO -- does not crash. Nevertheless, It's
> still erroneous. It's ABSOLUTELY NOT ALLOWED to read or write `test[1]`
> or `test[9]` because `test.size() == 1`.
>
> Anyway, the `vector` type HAS a dereference operation that does
> bounds-checking. You'll be much better off if you USE IT. That would
> look like this:
>
> int main ( int argc, char *argv[] )
> {
> std::vector test {0};
> assert(test.size() == 1); // VECTOR HAS JUST ONE ELEMENT!
> test.at(0) = 0; // SAFE
> test.at(1) = 1; // CRASH!
> test.at(9) = 9; // UNREACHABLE
> return 0;
> }
>
> This time it crashes with a much more helpful error message:
>
> terminate called after throwing an instance of 'std::out_of_range'
> what(): vector::_M_range_check: __n (which is 1) >= this->size() (which is 1)
>
> and if you back-trace in `gdb` it pinpoints exactly where the error is.
> (Unlike with your initial error, when it actually crashes AFTER the
> actual erroneous access.)
>
> Due to the bounds-checking, you haven't overwritten any of the memory
> management record-keeping, so it can give you honest results.
>
> If you don't like bounds-checking, TOUGH... do it anyway. ONCE THE
> PROGRAM IS WORKING, you can optimize it away where you really think you
> need to. (Usually you don't.)
>
> That's my $0.03.
>
> CL
>

http://www.ohio.edu/people/witmerl/lab.htm

--
So many immigrant groups have swept through our town
that Brooklyn, like Atlantis, reaches mythological
proportions in the mind of the world - RI Safir 1998
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  1. 2016-11-01 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] how is it indexing in cuda
  2. 2016-11-01 Ruben Safir <ruben.safir-at-my.liu.edu> Re: [Learn] not adequately speced of explained
  3. 2016-11-01 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] how is it indexing in cuda
  4. 2016-11-01 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] not adequately speced of explained
  5. 2016-11-02 Christopher League <league-at-contrapunctus.net> Re: [Learn] Fitch Algorithm - C++
  6. 2016-11-02 Ruben Safir <mrbrklyn-at-panix.com> Re: [Learn] Fitch Algorithm - C++
  7. 2016-11-02 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] how is it indexing in cuda
  8. 2016-11-02 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fitch Algorithm - C++
  9. 2016-11-02 IEEE Computer Society <csconnection-at-computer.org> Subject: [Learn] Hear Google's John Martinis Take on Quantum Computing at
  10. 2016-11-02 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] opencl
  11. 2016-11-02 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] scheduled for tommorw
  12. 2016-11-02 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] threads tutorial
  13. 2016-11-03 Ruben Safir <mrbrklyn-at-panix.com> Re: [Learn] Fitch Algorithm - C++
  14. 2016-11-03 Ruben Safir <mrbrklyn-at-panix.com> Re: [Learn] Fitch Algorithm - C++
  15. 2016-11-03 Ruben Safir <mrbrklyn-at-panix.com> Re: [Learn] Fitch Algorithm - C++
  16. 2016-11-03 Christopher League <league-at-contrapunctus.net> Re: [Learn] huffman code
  17. 2016-11-03 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] huffman code
  18. 2016-11-03 Ruben Safir <ruben.safir-at-my.liu.edu> Re: [Learn] huffman code
  19. 2016-11-03 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fitch algorithm from the beginning
  20. 2016-11-03 From: <mrbrklyn-at-panix.com> Subject: [Learn] huffman code
  21. 2016-11-03 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] Phenology meeting
  22. 2016-11-03 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] relevant hackathon
  23. 2016-11-03 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] relevant hackathon
  24. 2016-11-04 Ruben Safir <mrbrklyn-at-panix.com> Re: [Learn] huffman code
  25. 2016-11-04 Christopher League <league-at-contrapunctus.net> Subject: [Learn] Fitch/Sankoff
  26. 2016-11-05 Christopher League <league-at-contrapunctus.net> Re: [Learn] Fwd: templates within templates
  27. 2016-11-05 ruben safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fwd: Re: const T vs T const
  28. 2016-11-05 ruben safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fwd: Template Library files and Header linking troubles
  29. 2016-11-05 ruben safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fwd: templates within templates
  30. 2016-11-06 Ruben Safir <mrbrklyn-at-panix.com> Re: [Learn] Fwd: templates within templates
  31. 2016-11-06 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] Fwd: templates within templates
  32. 2016-11-06 Ruben Safir <mrbrklyn-at-panix.com> Re: [Learn] Fwd: templates within templates
  33. 2016-11-06 Christopher League <league-at-contrapunctus.net> Re: [Learn] Fwd: templates within templates
  34. 2016-11-06 Ruben Safir <mrbrklyn-at-panix.com> Re: [Learn] Fwd: templates within templates
  35. 2016-11-06 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] Fwd: templates within templates
  36. 2016-11-06 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] Fwd: templates within templates
  37. 2016-11-06 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] GNU Parallel 20161022 ('Matthew') released [stable]
  38. 2016-11-07 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] templates and ostream for future reference
  39. 2016-11-08 Christopher League <league-at-contrapunctus.net> Re: [Learn] C++ signature ambiguity
  40. 2016-11-08 Ruben Safir <ruben.safir-at-my.liu.edu> Re: [Learn] C++ signature ambiguity
  41. 2016-11-08 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] C++ signature ambiguity
  42. 2016-11-08 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fwd: Invitation: Phylogeny meeting -at- Weekly from 10:15 to
  43. 2016-11-08 Ruben Safir <mrbrklyn-at-panix.com> Subject: [Learn] Fwd: [nylug-talk] RSVP open: Wed Nov 16,
  44. 2016-11-09 Christopher League <league-at-contrapunctus.net> Re: [Learn] merge sort parallel hw
  45. 2016-11-09 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] merge sort parallel hw
  46. 2016-11-09 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] merge sort parallel hw
  47. 2016-11-09 Christopher League <league-at-contrapunctus.net> Re: [Learn] merge sort parallel hw
  48. 2016-11-09 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] mergesort tutorial
  49. 2016-11-09 Christopher League <league-at-contrapunctus.net> Re: [Learn] mergesort tutorial
  50. 2016-11-09 Christopher League <league-at-contrapunctus.net> Re: [Learn] namespace and external files confusion
  51. 2016-11-09 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] namespace and external files confusion
  52. 2016-11-09 From: "Carlos R. Mafra" <crmafra-at-gmail.com> Re: [Learn] Question about a small change
  53. 2016-11-09 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] =?utf-8?q?C++_call_of_overloaded_=E2=80=98track=28int*=26?=
  54. 2016-11-09 ruben safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fwd: lost arguments
  55. 2016-11-09 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fwd: [dinosaur] Dating origins of dinosaurs,
  56. 2016-11-09 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] merge sort parallel hw
  57. 2016-11-09 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] mergesort tutorial
  58. 2016-11-09 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] namespace and external files confusion
  59. 2016-11-10 Christopher League <league-at-contrapunctus.net> Re: [Learn] merge sort parallel hw
  60. 2016-11-10 Ruben Safir <mrbrklyn-at-panix.com> Re: [Learn] merge sort parallel hw
  61. 2016-11-10 Ruben Safir <mrbrklyn-at-panix.com> Re: [Learn] merge sort parallel hw
  62. 2016-11-10 Ruben Safir <ruben.safir-at-my.liu.edu> Re: [Learn] merge sort parallel hw
  63. 2016-11-10 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] [Hangout-NYLXS] mergesort tutorial
  64. 2016-11-10 Ruben Safir <mrbrklyn-at-panix.com> Subject: [Learn] Fwd: [Hangout-NYLXS] ease your mind- everything in the
  65. 2016-11-10 Ruben Safir <ruben.safir-at-my.liu.edu> Subject: [Learn] Fwd: [Hangout-NYLXS] R Programming Workshop
  66. 2016-11-10 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] Paleocast phenogenetic tree building
  67. 2016-11-11 Christopher League <league-at-contrapunctus.net> Re: [Learn] merge sort parallel hw
  68. 2016-11-12 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] HW of mergesort in parallel
  69. 2016-11-13 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] merge sort in parallel assignment
  70. 2016-11-14 Christopher League <league-at-contrapunctus.net> Re: [Learn] merge sort in parallel assignment
  71. 2016-11-14 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] merge sort in parallel assignment
  72. 2016-11-14 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] merge sort parallel hw
  73. 2016-11-14 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] CUDA and video
  74. 2016-11-14 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] PNG Graphic formats and CRCs
  75. 2016-11-15 ruben safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fwd: PNG coding
  76. 2016-11-15 ruben safir <ruben.safir-at-my.liu.edu> Subject: [Learn] Fwd: PNG Coding
  77. 2016-11-16 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] Fwd: lost arguments
  78. 2016-11-16 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] relevant hackathon
  79. 2016-11-16 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] C++ Workshop Announcement
  80. 2016-11-16 Ruben Safir <mrbrklyn-at-panix.com> Subject: [Learn] Fwd: Re: ref use
  81. 2016-11-16 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] ref use
  82. 2016-11-16 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] why use a reference wrapper int his example
  83. 2016-11-17 Ruben Safir <mrbrklyn-at-panix.com> Re: [Learn] [Hangout-NYLXS] at K&R now
  84. 2016-11-17 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fwd: [Hangout-NYLXS] Fwd: PNG Coding
  85. 2016-11-18 ruben safir <ruben-at-mrbrklyn.com> Subject: [Learn] C++ workshop and usenet responses
  86. 2016-11-19 ruben safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fwd: ref use
  87. 2016-11-20 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] when is the constructor called for an object
  88. 2016-11-21 ruben safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fwd: creating a binary tree
  89. 2016-11-21 ruben safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fwd: hidden static
  90. 2016-11-21 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fwd: ISBI 2017 Call for Abstracts and Non-Author
  91. 2016-11-21 ruben safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fwd: PNG coding
  92. 2016-11-21 ruben safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fwd: Re: the new {} syntax
  93. 2016-11-21 ruben safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fwd: when is the constructor called for an object
  94. 2016-11-21 ruben safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fwd: when is the constructor called for an object
  95. 2016-11-21 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fwd: [dinosaur] Eoconfuciusornis feather keratin and
  96. 2016-11-21 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] look what I found
  97. 2016-11-22 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] Cuccuency book
  98. 2016-11-22 ruben safir <ruben.safir-at-my.liu.edu> Subject: [Learn] declare a func or call an object
  99. 2016-11-22 Ruben Safir <ruben.safir-at-my.liu.edu> Subject: [Learn] Fwd: Re: Using CLIPS as a library
  100. 2016-11-23 Ruben Safir <ruben.safir-at-my.liu.edu> Subject: [Learn] Fwd: Simple C++11 Wrapper for CLIPS 6.30
  101. 2016-11-23 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] Parrelel Programming HW2 with maxpath
  102. 2016-11-24 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] great research news for big data
  103. 2016-11-24 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] mapping algorithms
  104. 2016-11-24 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] Todays meeting
  105. 2016-11-25 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fwd: [dinosaur] Flightless theropod phylogenetic variation
  106. 2016-11-26 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] Note to self for Thursday
  107. 2016-11-26 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fitch etc
  108. 2016-11-26 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] Note to self for Thursday
  109. 2016-11-26 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] operator<<() overloading details and friend
  110. 2016-11-27 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] 130 year old feathers analysis
  111. 2016-11-27 ruben safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fwd: ACM/SPEC ICPE 2017 - Call for Tutorial Proposals
  112. 2016-11-27 ruben safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fwd: ACM/SPEC ICPE 2017 - Call for Workshop Proposals
  113. 2016-11-27 ruben safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fwd: CfP 22nd Conf. Reliable Software Technologies,
  114. 2016-11-27 ruben safir <ruben-at-mrbrklyn.com> Subject: [Learn] Fwd: Seeking contributors for psyche-c
  115. 2016-11-29 Christopher League <league-at-contrapunctus.net> Re: [Learn] Look at this exciting output by my test program
  116. 2016-11-29 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] Look at this exciting output by my test program
  117. 2016-11-29 Ruben Safir <ruben-at-mrbrklyn.com> Re: [Learn] Look at this exciting output by my test program
  118. 2016-11-29 Christopher League <league-at-contrapunctus.net> Re: [Learn] Quantum Entanglement
  119. 2016-11-29 Ruben Safir <mrbrklyn-at-panix.com> Re: [Learn] Quantum Entanglement
  120. 2016-11-29 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] Here is the paper I was talking out
  121. 2016-11-29 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] Look at this exciting output by my test program
  122. 2016-11-29 nylxs <mrbrklyn-at-optonline.net> Subject: [Learn] Look at this exciting output by my test program
  123. 2016-11-29 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] Quantum Entanglement
  124. 2016-11-29 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] The Death of PBS
  125. 2016-11-29 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] witmer lab ohio and 3d imaging
  126. 2016-11-30 Ruben Safir <ruben-at-mrbrklyn.com> Subject: [Learn] phylogenetic crawler

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