[Olena-patches] olena-0.10 10.271: Add new binaries for Salembier et al. algorithm. New tool: pfm-crop.

2007-02-08 Roland Levillain &lt;roland(a)lrde.epita.fr&gt; Add new binaries for Salembier et al. algorithm. * oln/lrde/ufmt/generic_salembier.hh (generic_salembier::npoints) [DEBUG]: New attribute. (generic_salembier::generic_salembier) [DEBUG]: Initialize it. (generic_salembier::update_status) [DEBUG]: New function. (generic_salembier::flood) [DEBUG]: Use it. * oln/lrde/ufmt/generic_simplified_salembier.hh (generic_simplified_salembier::npoints) [DEBUG]: New attribute. (generic_simplified_salembier::generic_simplified_salembier) [DEBUG]: Initialize it. (generic_simplified_salembier::update_status) [DEBUG]: New function. (generic_simplified_salembier::flood) [DEBUG]: Use it. * oln/lrde/ufmt/bin/basic_salembier_float_via_16b.cc, * oln/lrde/ufmt/bin/generic_salembier_float_via_16b.cc: New. * oln/lrde/ufmt/bin/Makefile.am (check_PROGRAMS): Add basic_salembier_float_via_16b and generic_salembier_float_via_16b. (basic_salembier_float_via_16b_SOURCES) (basic_salembier_float_via_16b_LDFLAGS) (generic_salembier_float_via_16b_SOURCES) (generic_salembier_float_via_16b_LDFLAGS): New. * oln/lrde/ufmt/README: Typo. New tool: pfm-crop. * oln/lrde/efigi/misc.hh (crop): New function. * oln/lrde/efigi/req.hh (equalize_16): New function. * oln/lrde/efigi/pfm-crop.cc: New. * oln/lrde/efigi/Makefile.am (check_PROGRAMS): Add pfm-crop. (pfm_crop_SOURCES): New. --- 10.270/configure.ac Wed, 20 Dec 2006 14:46:12 +0100 levill_r (oln/3_configure. 1.47.1.1.1.1.1.4.1.15.1.16.1.11 600) +++ 10.271/configure.ac Thu, 08 Feb 2007 12:40:28 +0100 levill_r (oln/3_configure. 1.47.1.1.1.1.1.4.1.15.1.16.1.12 600) @@ -465,9 +465,9 @@ ## -- FIXME: Improve integration. ---------------------------------------- ## -## The contents of `olena/lrde' should be moved to subdirectory of -## `olena/oln', and the contents of `olena/lrde/ufmt/bin to `olena/tests' -## or to `tools'. +## The contents of `olena/oln/lrde' should be moved to another subdirectory +## of `olena/oln/', and the contents of `olena/lrde/ufmt/bin to +## `olena/tests' or to `tools'. AC_CONFIG_FILES([olena/oln/lrde/Makefile olena/oln/lrde/efigi/Makefile olena/oln/lrde/ufmt/Makefile --- 10.270/olena/oln/lrde/ufmt/README Wed, 03 Jan 2007 15:17:57 +0100 levill_r (oln/x/22_README 1.7 644) +++ 10.271/olena/oln/lrde/ufmt/README Thu, 08 Feb 2007 12:40:28 +0100 levill_r (oln/x/22_README 1.8 644) @@ -157,7 +157,7 @@ ** naive_generic_salembier -A previous version of generic_simplified_salembier, probablt no longer +A previous version of generic_simplified_salembier, probably no longer useful. flooding --- 10.270/olena/oln/lrde/ufmt/bin/Makefile.am Wed, 03 Jan 2007 15:17:57 +0100 levill_r (oln/x/29_Makefile.a 1.5 644) +++ 10.271/olena/oln/lrde/ufmt/bin/Makefile.am Thu, 08 Feb 2007 12:40:28 +0100 levill_r (oln/x/29_Makefile.a 1.6 644) @@ -6,14 +6,19 @@ generic_salembier_int_u8 generic_salembier_float generic_salembier_float2 \ generic_simplified_salembier_float \ naive_generic_salembier_float \ + basic_salembier_float_via_16b \ + generic_salembier_float_via_16b \ fiorio-1 fiorio-2 fiorio-3 \ hdc_maxtree hpc_maxtree r1ic_maxtree rpc_maxtree basic_maxtree_SOURCES = basic_maxtree.cc basic_najman_SOURCES = basic_najman.cc -basic_salembier_SOURCES = basic_salembier.cc +# Salembier - Unsigned integer versions. +basic_salembier_SOURCES = basic_salembier.cc generic_salembier_int_u8_SOURCES = generic_salembier_int_u8.cc + +# Salembier - Float versions. generic_salembier_float_SOURCES = generic_salembier_float.cc generic_salembier_float_LDFLAGS = -lcfitsio $(ZLIB_LDFLAGS) generic_salembier_float2_SOURCES = generic_salembier_float2.cc @@ -23,6 +28,13 @@ naive_generic_salembier_float_SOURCES = naive_generic_salembier_float.cc naive_generic_salembier_float_LDFLAGS = -lcfitsio $(ZLIB_LDFLAGS) +# Salembier - Float versions, using a 16-bits equalization step. +basic_salembier_float_via_16b_SOURCES = basic_salembier_float_via_16b.cc +basic_salembier_float_via_16b_LDFLAGS = -lcfitsio $(ZLIB_LDFLAGS) +generic_salembier_float_via_16b_SOURCES = generic_salembier_float_via_16b.cc +generic_salembier_float_via_16b_LDFLAGS = -lcfitsio $(ZLIB_LDFLAGS) + + fiorio_1_SOURCES = fiorio.cc fiorio_2_SOURCES = fiorio.cc fiorio_2_CPPFLAGS = -DFIORIO_VERSION=2 --- 10.270/olena/oln/lrde/efigi/misc.hh Fri, 15 Dec 2006 10:22:33 +0100 theo (oln/x/50_misc.hh 1.1 644) +++ 10.271/olena/oln/lrde/efigi/misc.hh Thu, 08 Feb 2007 12:40:28 +0100 levill_r (oln/x/50_misc.hh 1.2 644) @@ -150,6 +150,24 @@ } + // Crop a 2-D image. + template <typename T> + image2d<T> + crop(const image2d<T>& input, coord x, coord y, coord dx, coord dy) + { + assertion (dx > 0); + assertion (dy > 0); + assertion(ima.hold(point2d(x, y))); + assertion(ima.hold(point2d(x + dx, y + dy))); + + image2d<float> output(dx, dy); + for (coord row = 0; row < dx; ++row) + for (coord col = 0; col < dy; ++col) + output(row, col) = input(x + row, y + col); + return output; + } + + } // end of namespace oln::efigi } // end of namespace oln --- 10.270/olena/oln/lrde/efigi/req.hh Fri, 15 Dec 2006 10:22:33 +0100 theo (oln/y/0_req.hh 1.1 644) +++ 10.271/olena/oln/lrde/efigi/req.hh Thu, 08 Feb 2007 12:40:28 +0100 levill_r (oln/y/0_req.hh 1.2 644) @@ -160,6 +160,30 @@ return output; } + image2d<unsigned short> + equalize_16(const image2d<float>& input) + { + std::vector<pix> v = efigi::sort(input); + const int nrows = input.nrows(), ncols = input.ncols(); + image2d<unsigned short> output(nrows, ncols); + + unsigned n = unsigned((nrows * ncols) / 65536.f + 1.f); + unsigned l = 0; + for (;;) + { + for (unsigned i = 0; i < n; ++i) + { + unsigned j = l * n + i; + if (j >= v.size()) + return output; + pix& p = v[l * n + i]; + output(p.row, p.col) = l; + } + ++l; + } + return output; + } + image2d<bool> lab2bin(const image2d<unsigned char>& input) --- 10.270/olena/oln/lrde/efigi/Makefile.am Wed, 20 Dec 2006 14:46:12 +0100 levill_r (oln/y/6_Makefile.a 1.1 644) +++ 10.271/olena/oln/lrde/efigi/Makefile.am Thu, 08 Feb 2007 12:40:28 +0100 levill_r (oln/y/6_Makefile.a 1.2 644) @@ -21,12 +21,14 @@ check_PROGRAMS = \ gaussian \ + pfm-crop \ pfm2pgm \ pgm2pfm \ pgm2pfm_wo_noise \ wst gaussian_SOURCES = gaussian.cc +pfm_crop_SOURCES = pfm-crop.cc pfm2pgm_SOURCES = pfm2pgm.cc pgm2pfm_wo_noise_SOURCES = pgm2pfm_wo_noise.cc pgm2pfm_SOURCES = pgm2pfm.cc --- 10.270/olena/oln/lrde/ufmt/generic_salembier.hh Wed, 03 Jan 2007 15:17:57 +0100 levill_r (oln/y/8_generic_sa 1.2 644) +++ 10.271/olena/oln/lrde/ufmt/generic_salembier.hh Thu, 08 Feb 2007 12:40:28 +0100 levill_r (oln/y/8_generic_sa 1.3 644) @@ -153,6 +153,9 @@ typedef std::pair<unsigned, value> pair_t; std::map<pair_t, pair_t> father; +# ifdef OLN_DEBUG + unsigned npoints; +# endif // OLN_DEBUG generic_salembier(const abstract::image<I>& f, const oln_neighborhood_type(I)& nbh) : @@ -161,6 +164,9 @@ // FIXME: status should NOT be initialized here! // (but in "init()") (??) status(f.size()) +# ifdef OLN_DEBUG + , npoints(f.npoints()) +# endif // OLN_DEBUG { } @@ -195,6 +201,25 @@ } +# ifdef OLN_DEBUG + void update_status (std::ostream& ostr) + { + static unsigned nupdates = 0; + static const unsigned step = 1; + static unsigned next_step = step; + ++nupdates; + unsigned percent = nupdates * 100 / npoints; + if (percent >= next_step) + { + // Print. + std::cerr << percent << "% points processed" << std::endl; + // Increase the next step. + while (percent >= next_step) + next_step += step; + } + } +# endif // OLN_DEBUG + level_iterator flood(const value& h) { level_iterator m; @@ -203,6 +228,9 @@ point p = hqueue.first(h); status[p] = get(number_nodes, h, 0u); +# ifdef OLN_DEBUG + update_status(std::cerr); +# endif // OLN_DEBUG oln_neighb_type(Nbh) q(nbh, p); for_all(q) --- 10.270/olena/oln/lrde/ufmt/generic_simplified_salembier.hh Wed, 03 Jan 2007 15:17:57 +0100 levill_r (oln/y/14_generic_si 1.1 644) +++ 10.271/olena/oln/lrde/ufmt/generic_simplified_salembier.hh Thu, 08 Feb 2007 12:40:28 +0100 levill_r (oln/y/14_generic_si 1.2 644) @@ -251,6 +251,9 @@ std::map<point, point, point_less<I, point> > father; +# ifdef OLN_DEBUG + unsigned npoints; +# endif // OLN_DEBUG generic_simplified_salembier(const abstract::image<I>& f, const oln_neighborhood_type(I)& nbh) : @@ -261,6 +264,9 @@ pset(point_less<I, point>(f.exact())), sites(point_greater<I, point>(f.exact())), father(point_less<I, point>(f.exact())) +# ifdef OLN_DEBUG + , npoints(f.npoints()) +# endif // OLN_DEBUG { } @@ -306,6 +312,26 @@ // // --------------------------------------------------- DEBUG -- } +# ifdef OLN_DEBUG + void update_status (std::ostream& ostr) + { + static unsigned nupdates = 0; + static const unsigned step = 1; + static unsigned next_step = step; + ++nupdates; + unsigned percent = nupdates * 100 / npoints; + if (percent >= next_step) + { + // Print. + std::cerr << percent << "% points processed" << std::endl; + // Increase the next step. + while (percent >= next_step) + next_step += step; + } + } +# endif // OLN_DEBUG + + // H is a point here, not a level! // FIXME: Change the name of this argument, as it's confusing. site_iterator flood(const point& h) @@ -343,6 +369,9 @@ pset.erase(i); status[p] = true; +#ifdef OLN_DEBUG + update_status(std::cerr); +#endif // OLN_DEBUG // // -- DEBUG ----------------------------------------------- // std::cerr << " status = " << std::endl; Index: 10.270/oln.prj --- 10.270/oln.prj +++ 10.271/oln.prj @@ -1,47 +1,46 @@ ;; -*- Prcs -*- (Created-By-Prcs-Version 1 3 3) (Project-Description "Olena") -(Project-Version oln 10 270) -(Parent-Version oln 10 269) -(Version-Log "2007-01-03 Roland Levillain &lt;roland(a)lrde.epita.fr&gt; +(Project-Version oln 10 271) +(Parent-Version oln 10 270) +(Version-Log "2007-02-08 Roland Levillain &lt;roland(a)lrde.epita.fr&gt; - New versions of Salembier et al. algorithm. + Add new binaries for Salembier et al. algorithm. * oln/lrde/ufmt/generic_salembier.hh - (oln::lrde::ufmt::generic_salembier): Add a second template - parameter, defaulting to std::greater< oln_value_type(I) >. Use - this parameter for comparisons, to have the algorithm be more - flexible. - * oln/lrde/ufmt/bin/generic_salembier_float2.cc: New. - Use the second template parameter of - oln::lrde::ufmt::generic_salembier to create a more flexible - version of generic_salembier_float where float comparisons are - performed using a maxium relative error and a maximum absolute - error. - * oln/lrde/ufmt/generic_simplified_salembier.hh: New. - A simplified version of oln::lrde::ufmt::generic_salembier, - specially useful on float images. - * oln/lrde/ufmt/bin/generic_simplified_salembier_float.cc: New. - * oln/lrde/ufmt/naive_generic_salembier.hh: New. - A previous attempt before generic_simplified_salembier. - * oln/lrde/ufmt/basic_salembier.hh: More documentation. - * oln/lrde/ufmt/bin/basic_najman.cc: Typo. - * oln/lrde/ufmt/README: Document Salembier et al. algorithm variants. + (generic_salembier::npoints) [DEBUG]: New attribute. + (generic_salembier::generic_salembier) [DEBUG]: Initialize it. + (generic_salembier::update_status) [DEBUG]: New function. + (generic_salembier::flood) [DEBUG]: Use it. + * oln/lrde/ufmt/generic_simplified_salembier.hh + (generic_simplified_salembier::npoints) [DEBUG]: New attribute. + (generic_simplified_salembier::generic_simplified_salembier) + [DEBUG]: Initialize it. + (generic_simplified_salembier::update_status) [DEBUG]: New + function. + (generic_simplified_salembier::flood) [DEBUG]: Use it. + * oln/lrde/ufmt/bin/basic_salembier_float_via_16b.cc, + * oln/lrde/ufmt/bin/generic_salembier_float_via_16b.cc: New. * oln/lrde/ufmt/bin/Makefile.am (check_PROGRAMS): Add - generic_salembier_float2, generic_simplified_salembier_float - and naive_generic_salembier_float. - (generic_salembier_float2_SOURCES) - (generic_salembier_float2_LDFLAGS) - (generic_simplified_salembier_float_SOURCES) - (generic_simplified_salembier_float_LDFLAGS) - (naive_generic_salembier_float_SOURCES) - (naive_generic_salembier_float_LDFLAGS): New. - * oln/lrde/ufmt/Makefile.am (noinst_HEADERS): Add - generic_simplified_salembier.hh and naive_generic_salembier.hh. + basic_salembier_float_via_16b and generic_salembier_float_via_16b. + (basic_salembier_float_via_16b_SOURCES) + (basic_salembier_float_via_16b_LDFLAGS) + (generic_salembier_float_via_16b_SOURCES) + (generic_salembier_float_via_16b_LDFLAGS): New. + * oln/lrde/ufmt/README: Typo. + + + New tool: pfm-crop. + + * oln/lrde/efigi/misc.hh (crop): New function. + * oln/lrde/efigi/req.hh (equalize_16): New function. + * oln/lrde/efigi/pfm-crop.cc: New. + * oln/lrde/efigi/Makefile.am (check_PROGRAMS): Add pfm-crop. + (pfm_crop_SOURCES): New. ") (New-Version-Log "") -(Checkin-Time "Wed, 03 Jan 2007 15:17:57 +0100") +(Checkin-Time "Thu, 08 Feb 2007 12:40:28 +0100") (Checkin-Login levill_r) ;; diff-ignore tests/data/.*pbm$ ;; diff-ignore .*\.pbm$ @@ -154,11 +153,11 @@ (Project-Keywords) (Files - (ChangeLog (oln/o/33_ChangeLog 1.37.1.16.1.17.1.19.1.30 600)) + (ChangeLog (oln/o/33_ChangeLog 1.37.1.16.1.17.1.19.1.31 600)) (doc/ChangeLog (oln/o/31_ChangeLog 1.38.1.7.1.5.1.14.1.17 600)) (integre/ChangeLog (oln/q/35_ChangeLog 1.12.1.2.1.51 600)) (metalic/ChangeLog (oln/q/30_ChangeLog 1.3.1.44 600)) - (olena/ChangeLog (oln/o/30_ChangeLog 1.27.1.36.1.3.1.11.1.5.1.64.1.47.1.93.1.27.2.18.1.9 600)) + (olena/ChangeLog (oln/o/30_ChangeLog 1.27.1.36.1.3.1.11.1.5.1.64.1.47.1.93.1.27.2.18.1.10 600)) (tools/ChangeLog (oln/o/32_Index: 10.270/ChangeLog Index: 10.270/olena/ChangeLog ChangeLog 1.10.1.17 600)) (tools/swilena/ChangeLog (oln/n/37_ChangeLog 1.7.1.52 600)) @@ -170,7 +169,7 @@ (cleanup.sh (oln/o/29_cleanup.sh 1.6 700)) - (configure.ac (oln/3_configure. 1.47.1.1.1.1.1.4.1.15.1.16.1.11 600)) + (configure.ac (oln/3_configure. 1.47.1.1.1.1.1.4.1.15.1.16.1.12 600)) (doc/demo/image.cc (oln/d/46_image.cc 1.8 600)) (doc/demo/Makefile.am (oln/d/44_Makefile.a 1.16.1.2 600)) @@ -1594,7 +1593,7 @@ - (olena/oln/lrde/ufmt/README (oln/x/22_README 1.7 644)) + (olena/oln/lrde/ufmt/README (oln/x/22_README 1.8 644)) ;; Files deleted by depopulate at Fri, 04 Aug 2006 18:41:16 +0200, ;; from version 10.245(w), by theo: @@ -1613,7 +1612,7 @@ (olena/oln/lrde/ufmt/Makefile.am (oln/x/26_Makefile.a 1.6 644)) (olena/oln/lrde/ufmt/fiorio-1.hh (oln/x/27_fiorio-1.h 1.3 644)) (olena/oln/lrde/ufmt/fiorio-2.hh (oln/x/28_fiorio-2.h 1.3 644)) - (olena/oln/lrde/ufmt/bin/Makefile.am (oln/x/29_Makefile.a 1.5 644)) + (olena/oln/lrde/ufmt/bin/Makefile.am (oln/x/29_Makefile.a 1.6 644)) (olena/oln/lrde/ufmt/bin/fiorio.cc (oln/x/30_fiorio.cc 1.3 644)) ;; Files added by populate at Mon, 28 Aug 2006 10:51:36 +0200, ;; to version 10.249(w), by theo: @@ -1660,9 +1659,9 @@ ;; to version 10.255(w), by theo: (olena/oln/lrde/efigi/pfm2pgm.cc (oln/x/49_pfm2pgm.cc 1.1 644)) - (olena/oln/lrde/efigi/misc.hh (oln/x/50_misc.hh 1.1 644)) + (olena/oln/lrde/efigi/misc.hh (oln/x/50_misc.hh 1.2 644)) (olena/oln/lrde/efigi/io.hh (oln/x/51_io.hh 1.1 644)) - (olena/oln/lrde/efigi/req.hh (oln/y/0_req.hh 1.1 644)) + (olena/oln/lrde/efigi/req.hh (oln/y/0_req.hh 1.2 644)) (olena/oln/lrde/efigi/wst.cc (oln/y/1_wst.cc 1.1 644)) (olena/oln/lrde/efigi/gaussian.cc (oln/y/2_gaussian.c 1.1 644)) (olena/oln/lrde/efigi/pgm2pfm.cc (oln/y/3_pgm2pfm.cc 1.1 644)) @@ -1676,9 +1675,9 @@ ;; to version 10.268(w), by levill_r: (olena/oln/lrde/efigi/pgm2pfm_wo_noise.cc (oln/y/5_pgm2pfm_wo 1.1 644)) - (olena/oln/lrde/efigi/Makefile.am (oln/y/6_Makefile.a 1.1 644)) + (olena/oln/lrde/efigi/Makefile.am (oln/y/6_Makefile.a 1.2 644)) (olena/oln/lrde/ufmt/naive_generic_salembier.hh (oln/y/7_naive_gene 1.2 644)) - (olena/oln/lrde/ufmt/generic_salembier.hh (oln/y/8_generic_sa 1.2 644)) + (olena/oln/lrde/ufmt/generic_salembier.hh (oln/y/8_generic_sa 1.3 644)) (olena/oln/lrde/ufmt/bin/generic_salembier_int_u8.cc (oln/y/9_generic_sa 1.1 644)) (olena/oln/lrde/ufmt/bin/generic_salembier_float.cc (oln/y/10_generic_sa 1.1 644)) @@ -1688,7 +1687,14 @@ (olena/oln/lrde/ufmt/bin/generic_salembier_float2.cc (oln/y/11_generic_sa 1.1 644)) (olena/oln/lrde/ufmt/bin/generic_simplified_salembier_float.cc (oln/y/12_generic_si 1.1 644)) (olena/oln/lrde/ufmt/bin/naive_generic_salembier_float.cc (oln/y/13_naive_gene 1.1 644)) - (olena/oln/lrde/ufmt/generic_simplified_salembier.hh (oln/y/14_generic_si 1.1 644)) + (olena/oln/lrde/ufmt/generic_simplified_salembier.hh (oln/y/14_generic_si 1.2 644)) + +;; Files added by populate at Thu, 08 Feb 2007 12:31:43 +0100, +;; to version 10.270(w), by levill_r: + + (olena/oln/lrde/efigi/pfm-crop.cc (oln/y/15_pfm-crop.c 1.1 644)) + (olena/oln/lrde/ufmt/bin/basic_salembier_float_via_16b.cc (oln/y/16_basic_sale 1.1 644)) + (olena/oln/lrde/ufmt/bin/generic_salembier_float_via_16b.cc (oln/y/17_generic_sa 1.1 644)) ) (Merge-Parents) (New-Merge-Parents) --- 10.270/ChangeLog Wed, 20 Dec 2006 14:46:12 +0100 levill_r (oln/o/33_ChangeLog 1.37.1.16.1.17.1.19.1.30 600) +++ 10.271/ChangeLog Thu, 08 Feb 2007 12:40:28 +0100 levill_r (oln/o/33_ChangeLog 1.37.1.16.1.17.1.19.1.31 600) @@ -1,3 +1,7 @@ +2007-02-08 Roland Levillain &lt;roland(a)lrde.epita.fr&gt; + + * configure.ac: Typos. + 2006-12-20 Roland Levillain &lt;roland(a)lrde.epita.fr&gt; * configure.ac (olena/oln/lrde/efigi/Makefile): Configure it.