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diff --git a/barray-meat_8hpp_source.html b/barray-meat_8hpp_source.html index 52306f1e2..fc8901122 100644 --- a/barray-meat_8hpp_source.html +++ b/barray-meat_8hpp_source.html @@ -1444,7 +1444,7 @@ diff --git a/barraycell-bones_8hpp.html b/barraycell-bones_8hpp.html index 665da7ab5..3a9b766d8 100644 --- a/barraycell-bones_8hpp.html +++ b/barraycell-bones_8hpp.html @@ -123,7 +123,7 @@ diff --git a/barraycell-bones_8hpp_source.html b/barraycell-bones_8hpp_source.html index 26666b75d..e0678dffe 100644 --- a/barraycell-bones_8hpp_source.html +++ b/barraycell-bones_8hpp_source.html @@ -204,7 +204,7 @@ diff --git a/barraycell-meat_8hpp.html b/barraycell-meat_8hpp.html index 46ab2172e..902a859fc 100644 --- a/barraycell-meat_8hpp.html +++ b/barraycell-meat_8hpp.html @@ -113,7 +113,7 @@ diff --git a/barraycell-meat_8hpp_source.html b/barraycell-meat_8hpp_source.html index d992b4ad8..e75b2bda4 100644 --- a/barraycell-meat_8hpp_source.html +++ b/barraycell-meat_8hpp_source.html @@ -220,7 +220,7 @@ diff --git a/barraydense-bones_8hpp.html b/barraydense-bones_8hpp.html index 8fd74c907..80bc61b68 100644 --- a/barraydense-bones_8hpp.html +++ b/barraydense-bones_8hpp.html @@ -122,7 +122,7 @@ diff --git a/barraydense-bones_8hpp_source.html b/barraydense-bones_8hpp_source.html index 5ceb6a658..d2052ff63 100644 --- a/barraydense-bones_8hpp_source.html +++ b/barraydense-bones_8hpp_source.html @@ -340,7 +340,7 @@ diff --git a/barraydense-meat-operators_8hpp.html b/barraydense-meat-operators_8hpp.html index 7e0b450dd..53cdeb5ba 100644 --- a/barraydense-meat-operators_8hpp.html +++ b/barraydense-meat-operators_8hpp.html @@ -481,7 +481,7 @@

  • include
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diff --git a/barraydense-meat-operators_8hpp_source.html b/barraydense-meat-operators_8hpp_source.html index f67c0d8b1..b2be50e27 100644 --- a/barraydense-meat-operators_8hpp_source.html +++ b/barraydense-meat-operators_8hpp_source.html @@ -231,7 +231,7 @@ diff --git a/barraydense-meat_8hpp.html b/barraydense-meat_8hpp.html index 57b889b0a..ad9fb6bd5 100644 --- a/barraydense-meat_8hpp.html +++ b/barraydense-meat_8hpp.html @@ -252,7 +252,7 @@

  • include
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    • -
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    • +
  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/barraydense-meat_8hpp_source.html b/barraydense-meat_8hpp_source.html index 50ee092a5..89fcbb44b 100644 --- a/barraydense-meat_8hpp_source.html +++ b/barraydense-meat_8hpp_source.html @@ -1202,7 +1202,7 @@ diff --git a/barraydensecell-bones_8hpp.html b/barraydensecell-bones_8hpp.html index 84ee05a5a..89e498390 100644 --- a/barraydensecell-bones_8hpp.html +++ b/barraydensecell-bones_8hpp.html @@ -158,7 +158,7 @@

  • include
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diff --git a/barraydensecell-bones_8hpp_source.html b/barraydensecell-bones_8hpp_source.html index 8f4aa5b49..e8743cf21 100644 --- a/barraydensecell-bones_8hpp_source.html +++ b/barraydensecell-bones_8hpp_source.html @@ -189,7 +189,7 @@ diff --git a/barraydensecell-meat_8hpp.html b/barraydensecell-meat_8hpp.html index 2ce664062..d7f817563 100644 --- a/barraydensecell-meat_8hpp.html +++ b/barraydensecell-meat_8hpp.html @@ -152,7 +152,7 @@

  • include
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    • -
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  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/barraydensecell-meat_8hpp_source.html b/barraydensecell-meat_8hpp_source.html index 1ef51171a..577664649 100644 --- a/barraydensecell-meat_8hpp_source.html +++ b/barraydensecell-meat_8hpp_source.html @@ -235,7 +235,7 @@ diff --git a/barraydensecol-bones_8hpp.html b/barraydensecol-bones_8hpp.html index 63f0bb51f..778d94ec1 100644 --- a/barraydensecol-bones_8hpp.html +++ b/barraydensecol-bones_8hpp.html @@ -216,7 +216,7 @@

  • include
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    • -
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  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/barraydensecol-bones_8hpp_source.html b/barraydensecol-bones_8hpp_source.html index bde38ed66..8d56b098b 100644 --- a/barraydensecol-bones_8hpp_source.html +++ b/barraydensecol-bones_8hpp_source.html @@ -246,7 +246,7 @@ diff --git a/barraydenserow-bones_8hpp.html b/barraydenserow-bones_8hpp.html index 296a98fe0..36f5aafc0 100644 --- a/barraydenserow-bones_8hpp.html +++ b/barraydenserow-bones_8hpp.html @@ -216,7 +216,7 @@

  • include
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  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/barraydenserow-bones_8hpp_source.html b/barraydenserow-bones_8hpp_source.html index 82161cde5..89ca3c771 100644 --- a/barraydenserow-bones_8hpp_source.html +++ b/barraydenserow-bones_8hpp_source.html @@ -257,7 +257,7 @@ diff --git a/barrayrow-bones_8hpp.html b/barrayrow-bones_8hpp.html index 0157f3a57..5efea24cd 100644 --- a/barrayrow-bones_8hpp.html +++ b/barrayrow-bones_8hpp.html @@ -114,7 +114,7 @@ diff --git a/barrayrow-bones_8hpp_source.html b/barrayrow-bones_8hpp_source.html index 6f4e57e01..dbbfd272a 100644 --- a/barrayrow-bones_8hpp_source.html +++ b/barrayrow-bones_8hpp_source.html @@ -195,7 +195,7 @@ diff --git a/barrayrow-meat_8hpp.html b/barrayrow-meat_8hpp.html index 26e58437d..4d6bb567a 100644 --- a/barrayrow-meat_8hpp.html +++ b/barrayrow-meat_8hpp.html @@ -350,7 +350,7 @@

  • include
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    • -
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    • +
  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/barrayrow-meat_8hpp_source.html b/barrayrow-meat_8hpp_source.html index 3f184a5f1..ff2377e10 100644 --- a/barrayrow-meat_8hpp_source.html +++ b/barrayrow-meat_8hpp_source.html @@ -229,7 +229,7 @@ diff --git a/barrayvector-bones_8hpp.html b/barrayvector-bones_8hpp.html index bccbc132a..7d5f1c639 100644 --- a/barrayvector-bones_8hpp.html +++ b/barrayvector-bones_8hpp.html @@ -115,7 +115,7 @@ diff --git a/barrayvector-bones_8hpp_source.html b/barrayvector-bones_8hpp_source.html index 05446b0c1..0ca4515a7 100644 --- a/barrayvector-bones_8hpp_source.html +++ b/barrayvector-bones_8hpp_source.html @@ -232,7 +232,7 @@ diff --git a/barrayvector-meat_8hpp.html b/barrayvector-meat_8hpp.html index f4f631f1b..3b47365d2 100644 --- a/barrayvector-meat_8hpp.html +++ b/barrayvector-meat_8hpp.html @@ -104,7 +104,7 @@ diff --git a/barrayvector-meat_8hpp_source.html b/barrayvector-meat_8hpp_source.html index ebca44e0f..0ab21eb8c 100644 --- a/barrayvector-meat_8hpp_source.html +++ b/barrayvector-meat_8hpp_source.html @@ -446,7 +446,7 @@ diff --git a/barry-configuration_8hpp.html b/barry-configuration_8hpp.html index 4c402290c..0fdb952d2 100644 --- a/barry-configuration_8hpp.html +++ b/barry-configuration_8hpp.html @@ -257,7 +257,7 @@

  • include
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    • -
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diff --git a/barry-configuration_8hpp_source.html b/barry-configuration_8hpp_source.html index 39585f500..0bfa5a01c 100644 --- a/barry-configuration_8hpp_source.html +++ b/barry-configuration_8hpp_source.html @@ -160,7 +160,7 @@ diff --git a/barry-debug_8hpp.html b/barry-debug_8hpp.html index eee6dad68..5c49000b6 100644 --- a/barry-debug_8hpp.html +++ b/barry-debug_8hpp.html @@ -139,7 +139,7 @@

  • include
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    • -
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diff --git a/barry-debug_8hpp_source.html b/barry-debug_8hpp_source.html index 4736cc61a..dfd2db50a 100644 --- a/barry-debug_8hpp_source.html +++ b/barry-debug_8hpp_source.html @@ -146,7 +146,7 @@ diff --git a/barry-macros_8hpp.html b/barry-macros_8hpp.html index 94c82ae07..9be7367c0 100644 --- a/barry-macros_8hpp.html +++ b/barry-macros_8hpp.html @@ -214,7 +214,7 @@

  • include
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diff --git a/barry-macros_8hpp_source.html b/barry-macros_8hpp_source.html index 2efac3687..2a0c4f126 100644 --- a/barry-macros_8hpp_source.html +++ b/barry-macros_8hpp_source.html @@ -114,7 +114,7 @@ diff --git a/barry_8hpp.html b/barry_8hpp.html index 23be0d105..6b2477698 100644 --- a/barry_8hpp.html +++ b/barry_8hpp.html @@ -402,7 +402,7 @@

  • include
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  • barry.hpp
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  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/barry_8hpp_source.html b/barry_8hpp_source.html index 00d662060..06db43405 100644 --- a/barry_8hpp_source.html +++ b/barry_8hpp_source.html @@ -233,7 +233,7 @@ diff --git a/cell-bones_8hpp.html b/cell-bones_8hpp.html index 407e5cab7..caa46446e 100644 --- a/cell-bones_8hpp.html +++ b/cell-bones_8hpp.html @@ -122,7 +122,7 @@ diff --git a/cell-bones_8hpp_source.html b/cell-bones_8hpp_source.html index 49bb41699..8f5193f1a 100644 --- a/cell-bones_8hpp_source.html +++ b/cell-bones_8hpp_source.html @@ -159,7 +159,7 @@ diff --git a/cell-meat_8hpp.html b/cell-meat_8hpp.html index 3d1baa8ee..e94fc4701 100644 --- a/cell-meat_8hpp.html +++ b/cell-meat_8hpp.html @@ -113,7 +113,7 @@ diff --git a/cell-meat_8hpp_source.html b/cell-meat_8hpp_source.html index a02810944..1b62f28a8 100644 --- a/cell-meat_8hpp_source.html +++ b/cell-meat_8hpp_source.html @@ -180,7 +180,7 @@ diff --git a/class_b_array-members.html b/class_b_array-members.html index c5f739e97..7b19f59de 100644 --- a/class_b_array-members.html +++ b/class_b_array-members.html @@ -165,7 +165,7 @@ diff --git a/class_b_array.html b/class_b_array.html index 714059848..2473a6ffd 100644 --- a/class_b_array.html +++ b/class_b_array.html @@ -2141,7 +2141,7 @@

  • BArray
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diff --git a/class_b_array_cell-members.html b/class_b_array_cell-members.html index 17ddbad46..fdc7c9e3d 100644 --- a/class_b_array_cell-members.html +++ b/class_b_array_cell-members.html @@ -113,7 +113,7 @@ diff --git a/class_b_array_cell.html b/class_b_array_cell.html index 6e4658b13..5dd279bca 100644 --- a/class_b_array_cell.html +++ b/class_b_array_cell.html @@ -430,7 +430,7 @@

  • BArrayCell
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diff --git a/class_b_array_cell__const-members.html b/class_b_array_cell__const-members.html index 3f683fc3f..eed68900a 100644 --- a/class_b_array_cell__const-members.html +++ b/class_b_array_cell__const-members.html @@ -113,7 +113,7 @@ diff --git a/class_b_array_cell__const.html b/class_b_array_cell__const.html index d0b1bdcbf..a3a6a6738 100644 --- a/class_b_array_cell__const.html +++ b/class_b_array_cell__const.html @@ -430,7 +430,7 @@

  • BArrayCell_const
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diff --git a/class_b_array_dense-members.html b/class_b_array_dense-members.html index 59f09e8f5..b46c0c96c 100644 --- a/class_b_array_dense-members.html +++ b/class_b_array_dense-members.html @@ -170,7 +170,7 @@ diff --git a/class_b_array_dense.html b/class_b_array_dense.html index 3210521e2..a7ebea3f3 100644 --- a/class_b_array_dense.html +++ b/class_b_array_dense.html @@ -2668,7 +2668,7 @@

  • BArrayDense
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diff --git a/class_b_array_dense_cell-members.html b/class_b_array_dense_cell-members.html index 7b7db45b8..9565dde97 100644 --- a/class_b_array_dense_cell-members.html +++ b/class_b_array_dense_cell-members.html @@ -117,7 +117,7 @@ diff --git a/class_b_array_dense_cell.html b/class_b_array_dense_cell.html index f1aaae62c..bc7c5ee44 100644 --- a/class_b_array_dense_cell.html +++ b/class_b_array_dense_cell.html @@ -550,7 +550,7 @@

  • BArrayDenseCell
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diff --git a/class_b_array_dense_cell__const.html b/class_b_array_dense_cell__const.html index 4c3898516..eba3a1adf 100644 --- a/class_b_array_dense_cell__const.html +++ b/class_b_array_dense_cell__const.html @@ -111,7 +111,7 @@ diff --git a/class_b_array_dense_col-members.html b/class_b_array_dense_col-members.html index 91aeab6c6..3f30664da 100644 --- a/class_b_array_dense_col-members.html +++ b/class_b_array_dense_col-members.html @@ -112,7 +112,7 @@ diff --git a/class_b_array_dense_col.html b/class_b_array_dense_col.html index 603b04d38..e4aae5bd3 100644 --- a/class_b_array_dense_col.html +++ b/class_b_array_dense_col.html @@ -379,7 +379,7 @@

  • BArrayDenseCol
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diff --git a/class_b_array_dense_col__const-members.html b/class_b_array_dense_col__const-members.html index 3c8386b1d..9a9221444 100644 --- a/class_b_array_dense_col__const-members.html +++ b/class_b_array_dense_col__const-members.html @@ -111,7 +111,7 @@ diff --git a/class_b_array_dense_col__const.html b/class_b_array_dense_col__const.html index 2351169c7..1a8896cf7 100644 --- a/class_b_array_dense_col__const.html +++ b/class_b_array_dense_col__const.html @@ -351,7 +351,7 @@

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diff --git a/class_b_array_dense_row-members.html b/class_b_array_dense_row-members.html index a58e74a52..a3f44054c 100644 --- a/class_b_array_dense_row-members.html +++ b/class_b_array_dense_row-members.html @@ -112,7 +112,7 @@ diff --git a/class_b_array_dense_row.html b/class_b_array_dense_row.html index ed6bf8b56..ca8764d6d 100644 --- a/class_b_array_dense_row.html +++ b/class_b_array_dense_row.html @@ -379,7 +379,7 @@

  • BArrayDenseRow
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diff --git a/class_b_array_dense_row__const-members.html b/class_b_array_dense_row__const-members.html index df89aca7e..8b3ec62a9 100644 --- a/class_b_array_dense_row__const-members.html +++ b/class_b_array_dense_row__const-members.html @@ -111,7 +111,7 @@ diff --git a/class_b_array_dense_row__const.html b/class_b_array_dense_row__const.html index 6ffdb10f4..c828f8f63 100644 --- a/class_b_array_dense_row__const.html +++ b/class_b_array_dense_row__const.html @@ -351,7 +351,7 @@

  • BArrayDenseRow_const
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diff --git a/class_b_array_row-members.html b/class_b_array_row-members.html index fba1e5a47..61f901fc1 100644 --- a/class_b_array_row-members.html +++ b/class_b_array_row-members.html @@ -113,7 +113,7 @@ diff --git a/class_b_array_row.html b/class_b_array_row.html index b47f24249..f197b474c 100644 --- a/class_b_array_row.html +++ b/class_b_array_row.html @@ -354,7 +354,7 @@

  • BArrayRow
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  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
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diff --git a/class_b_array_row__const-members.html b/class_b_array_row__const-members.html index 308aa3130..f41229092 100644 --- a/class_b_array_row__const-members.html +++ b/class_b_array_row__const-members.html @@ -113,7 +113,7 @@ diff --git a/class_b_array_row__const.html b/class_b_array_row__const.html index 0f8a6d17e..6a99f8e98 100644 --- a/class_b_array_row__const.html +++ b/class_b_array_row__const.html @@ -354,7 +354,7 @@

  • BArrayRow_const
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diff --git a/class_b_array_vector-members.html b/class_b_array_vector-members.html index c28da6dbe..9b15792ce 100644 --- a/class_b_array_vector-members.html +++ b/class_b_array_vector-members.html @@ -118,7 +118,7 @@ diff --git a/class_b_array_vector.html b/class_b_array_vector.html index 496fdbfeb..184d72adb 100644 --- a/class_b_array_vector.html +++ b/class_b_array_vector.html @@ -585,7 +585,7 @@

  • BArrayVector
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diff --git a/class_b_array_vector__const-members.html b/class_b_array_vector__const-members.html index 3146fd331..f75bf8996 100644 --- a/class_b_array_vector__const-members.html +++ b/class_b_array_vector__const-members.html @@ -118,7 +118,7 @@ diff --git a/class_b_array_vector__const.html b/class_b_array_vector__const.html index 676b3b5ea..77bcfba8a 100644 --- a/class_b_array_vector__const.html +++ b/class_b_array_vector__const.html @@ -567,7 +567,7 @@

  • BArrayVector_const
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diff --git a/class_cell-members.html b/class_cell-members.html index 43e9c2459..b4a89399d 100644 --- a/class_cell-members.html +++ b/class_cell-members.html @@ -124,7 +124,7 @@ diff --git a/class_cell.html b/class_cell.html index 27c4fe4d8..0accb1e4d 100644 --- a/class_cell.html +++ b/class_cell.html @@ -695,7 +695,7 @@

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  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/class_cell__const.html b/class_cell__const.html index 823875675..9a9925cac 100644 --- a/class_cell__const.html +++ b/class_cell__const.html @@ -111,7 +111,7 @@ diff --git a/class_const_b_array_row_iter-members.html b/class_const_b_array_row_iter-members.html index 61836b73d..62ecf9834 100644 --- a/class_const_b_array_row_iter-members.html +++ b/class_const_b_array_row_iter-members.html @@ -110,7 +110,7 @@ diff --git a/class_const_b_array_row_iter.html b/class_const_b_array_row_iter.html index 14cd08122..11582a41f 100644 --- a/class_const_b_array_row_iter.html +++ b/class_const_b_array_row_iter.html @@ -278,7 +278,7 @@

  • ConstBArrayRowIter
    • -
  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
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  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/class_counter-members.html b/class_counter-members.html index fdf0190bf..5556e5f20 100644 --- a/class_counter-members.html +++ b/class_counter-members.html @@ -123,7 +123,7 @@ diff --git a/class_counter.html b/class_counter.html index 1d93bf1fb..85f3d2245 100644 --- a/class_counter.html +++ b/class_counter.html @@ -679,7 +679,7 @@

  • Counter
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  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
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  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/class_counters-members.html b/class_counters-members.html index b0a3b98dc..1eab2583f 100644 --- a/class_counters-members.html +++ b/class_counters-members.html @@ -118,7 +118,7 @@ diff --git a/class_counters.html b/class_counters.html index e95395a9d..461bab7d5 100644 --- a/class_counters.html +++ b/class_counters.html @@ -573,7 +573,7 @@

  • Counters
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  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
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diff --git a/class_d_e_f_m-members.html b/class_d_e_f_m-members.html index 342ad4a8c..09684a6e2 100644 --- a/class_d_e_f_m-members.html +++ b/class_d_e_f_m-members.html @@ -124,7 +124,7 @@ diff --git a/class_d_e_f_m.html b/class_d_e_f_m.html index d0e22587d..6e9612dd9 100644 --- a/class_d_e_f_m.html +++ b/class_d_e_f_m.html @@ -811,7 +811,7 @@

  • DEFM
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  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
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  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/class_d_e_f_m_counter_data-members.html b/class_d_e_f_m_counter_data-members.html index cb28ba266..4c3997088 100644 --- a/class_d_e_f_m_counter_data-members.html +++ b/class_d_e_f_m_counter_data-members.html @@ -114,7 +114,7 @@ diff --git a/class_d_e_f_m_counter_data.html b/class_d_e_f_m_counter_data.html index 5fe082b8d..c021daf76 100644 --- a/class_d_e_f_m_counter_data.html +++ b/class_d_e_f_m_counter_data.html @@ -146,7 +146,7 @@ diff --git a/class_d_e_f_m_data-members.html b/class_d_e_f_m_data-members.html index fda9931bc..dc1250cd1 100644 --- a/class_d_e_f_m_data-members.html +++ b/class_d_e_f_m_data-members.html @@ -119,7 +119,7 @@ diff --git a/class_d_e_f_m_data.html b/class_d_e_f_m_data.html index dc0668cb2..379a3c3da 100644 --- a/class_d_e_f_m_data.html +++ b/class_d_e_f_m_data.html @@ -164,7 +164,7 @@ diff --git a/class_d_e_f_m_rule_data-members.html b/class_d_e_f_m_rule_data-members.html index 8a0ad9204..acadc72b7 100644 --- a/class_d_e_f_m_rule_data-members.html +++ b/class_d_e_f_m_rule_data-members.html @@ -114,7 +114,7 @@ diff --git a/class_d_e_f_m_rule_data.html b/class_d_e_f_m_rule_data.html index 31f797ad8..afb5f859e 100644 --- a/class_d_e_f_m_rule_data.html +++ b/class_d_e_f_m_rule_data.html @@ -150,7 +150,7 @@ diff --git a/class_d_e_f_m_rule_dyn_data-members.html b/class_d_e_f_m_rule_dyn_data-members.html index 112afdd5d..60aab7490 100644 --- a/class_d_e_f_m_rule_dyn_data-members.html +++ b/class_d_e_f_m_rule_dyn_data-members.html @@ -117,7 +117,7 @@ diff --git a/class_d_e_f_m_rule_dyn_data.html b/class_d_e_f_m_rule_dyn_data.html index 67babcce8..cec0524b1 100644 --- a/class_d_e_f_m_rule_dyn_data.html +++ b/class_d_e_f_m_rule_dyn_data.html @@ -167,7 +167,7 @@ diff --git a/class_entries-members.html b/class_entries-members.html index 63908d06e..0d428f036 100644 --- a/class_entries-members.html +++ b/class_entries-members.html @@ -111,7 +111,7 @@ diff --git a/class_entries.html b/class_entries.html index 02096add0..4030d41c0 100644 --- a/class_entries.html +++ b/class_entries.html @@ -323,7 +323,7 @@

  • Entries
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  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
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  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/class_flock-members.html b/class_flock-members.html index 8f792e448..a79a69716 100644 --- a/class_flock-members.html +++ b/class_flock-members.html @@ -130,7 +130,7 @@ diff --git a/class_flock.html b/class_flock.html index c83f0271a..3db7f31c7 100644 --- a/class_flock.html +++ b/class_flock.html @@ -942,7 +942,7 @@

  • Flock
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  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
    • +
  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/class_freq_table-members.html b/class_freq_table-members.html index b71877056..5f2399dab 100644 --- a/class_freq_table-members.html +++ b/class_freq_table-members.html @@ -115,7 +115,7 @@ diff --git a/class_freq_table.html b/class_freq_table.html index 797a17d72..3bb1ef1da 100644 --- a/class_freq_table.html +++ b/class_freq_table.html @@ -491,7 +491,7 @@

  • FreqTable
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  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
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  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/class_geese-members.html b/class_geese-members.html index bf9e77b91..1fcd220d0 100644 --- a/class_geese-members.html +++ b/class_geese-members.html @@ -159,7 +159,7 @@ diff --git a/class_geese.html b/class_geese.html index 8a9fd626c..13e2d603d 100644 --- a/class_geese.html +++ b/class_geese.html @@ -1883,7 +1883,7 @@

  • Geese
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  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/class_model-members.html b/class_model-members.html index 4fae6d4cf..235720ee3 100644 --- a/class_model-members.html +++ b/class_model-members.html @@ -181,7 +181,7 @@ diff --git a/class_model.html b/class_model.html index eb3ed0433..f99241e89 100644 --- a/class_model.html +++ b/class_model.html @@ -2476,7 +2476,7 @@

  • Model
    • -
  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
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diff --git a/class_net_counter_data-members.html b/class_net_counter_data-members.html index 7f0e59d23..4c5a7e80d 100644 --- a/class_net_counter_data-members.html +++ b/class_net_counter_data-members.html @@ -109,7 +109,7 @@ diff --git a/class_net_counter_data.html b/class_net_counter_data.html index 38f1fd74c..eee7ac6ef 100644 --- a/class_net_counter_data.html +++ b/class_net_counter_data.html @@ -261,7 +261,7 @@

  • NetCounterData
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diff --git a/class_network_data-members.html b/class_network_data-members.html index fbc46e74e..ed3f714cb 100644 --- a/class_network_data-members.html +++ b/class_network_data-members.html @@ -110,7 +110,7 @@ diff --git a/class_network_data.html b/class_network_data.html index 016964ab3..901fe4dfe 100644 --- a/class_network_data.html +++ b/class_network_data.html @@ -323,7 +323,7 @@

  • NetworkData
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diff --git a/class_node-members.html b/class_node-members.html index 16a03a4a9..6a3b2174f 100644 --- a/class_node-members.html +++ b/class_node-members.html @@ -125,7 +125,7 @@ diff --git a/class_node.html b/class_node.html index 1908fd169..827d37c80 100644 --- a/class_node.html +++ b/class_node.html @@ -687,7 +687,7 @@

  • Node
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  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
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  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/class_node_data-members.html b/class_node_data-members.html index 0fb3da860..830f56d8d 100644 --- a/class_node_data-members.html +++ b/class_node_data-members.html @@ -108,7 +108,7 @@ diff --git a/class_node_data.html b/class_node_data.html index 9e043eba7..6140255bc 100644 --- a/class_node_data.html +++ b/class_node_data.html @@ -124,7 +124,7 @@

Data definition for the PhyloArray class.

This holds basic information about a given node.

-

Definition at line 12 of file geese-types.hpp.

+

Definition at line 15 of file geese-types.hpp.

Constructor & Destructor Documentation

◆ NodeData()

@@ -166,7 +166,7 @@

-

Definition at line 32 of file geese-types.hpp.

+

Definition at line 35 of file geese-types.hpp.

@@ -184,7 +184,7 @@

Branch length.

-

Definition at line 18 of file geese-types.hpp.

+

Definition at line 21 of file geese-types.hpp.

@@ -200,7 +200,7 @@

-

Definition at line 28 of file geese-types.hpp.

+

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State of the parent node.

-

Definition at line 23 of file geese-types.hpp.

+

Definition at line 26 of file geese-types.hpp.

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  • NodeData
    • -
  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
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  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/class_phylo_counter_data-members.html b/class_phylo_counter_data-members.html index 2b4832640..61730a05a 100644 --- a/class_phylo_counter_data-members.html +++ b/class_phylo_counter_data-members.html @@ -117,7 +117,7 @@ diff --git a/class_phylo_counter_data.html b/class_phylo_counter_data.html index 630933e57..1b452b522 100644 --- a/class_phylo_counter_data.html +++ b/class_phylo_counter_data.html @@ -133,7 +133,7 @@

Detailed Description

-

Definition at line 42 of file geese-types.hpp.

+

Definition at line 45 of file geese-types.hpp.

Constructor & Destructor Documentation

◆ PhyloCounterData() [1/2]

@@ -169,7 +169,7 @@

-

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  • PhyloCounterData
    • -
  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
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  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/class_phylo_rule_dyn_data-members.html b/class_phylo_rule_dyn_data-members.html index b45a2ae3d..12e109a89 100644 --- a/class_phylo_rule_dyn_data-members.html +++ b/class_phylo_rule_dyn_data-members.html @@ -112,7 +112,7 @@ diff --git a/class_phylo_rule_dyn_data.html b/class_phylo_rule_dyn_data.html index 81d8a4fef..9de777d98 100644 --- a/class_phylo_rule_dyn_data.html +++ b/class_phylo_rule_dyn_data.html @@ -127,7 +127,7 @@

Detailed Description

-

Definition at line 71 of file geese-types.hpp.

+

Definition at line 74 of file geese-types.hpp.

Constructor & Destructor Documentation

◆ PhyloRuleDynData()

@@ -181,7 +181,7 @@

-

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  • PhyloRuleDynData
    • -
  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
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diff --git a/class_power_set-members.html b/class_power_set-members.html index 407fc85ca..120b8e9b7 100644 --- a/class_power_set-members.html +++ b/class_power_set-members.html @@ -129,7 +129,7 @@ diff --git a/class_power_set.html b/class_power_set.html index 193e942cf..66a8205bc 100644 --- a/class_power_set.html +++ b/class_power_set.html @@ -845,7 +845,7 @@

  • PowerSet
    • -
  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
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  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/class_progress-members.html b/class_progress-members.html index b9eae256d..5f197a70e 100644 --- a/class_progress-members.html +++ b/class_progress-members.html @@ -108,7 +108,7 @@ diff --git a/class_progress.html b/class_progress.html index 5773671ef..3552ef17a 100644 --- a/class_progress.html +++ b/class_progress.html @@ -250,7 +250,7 @@

  • Progress
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  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
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  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/class_rule-members.html b/class_rule-members.html index 1ed0539c4..b33c5698f 100644 --- a/class_rule-members.html +++ b/class_rule-members.html @@ -113,7 +113,7 @@ diff --git a/class_rule.html b/class_rule.html index e6bf28ede..19ad99a68 100644 --- a/class_rule.html +++ b/class_rule.html @@ -452,7 +452,7 @@

  • Rule
    • -
  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
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  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/class_rules-members.html b/class_rules-members.html index e809aa473..76cbd96e2 100644 --- a/class_rules-members.html +++ b/class_rules-members.html @@ -117,7 +117,7 @@ diff --git a/class_rules.html b/class_rules.html index bfb7b561c..de8bd6461 100644 --- a/class_rules.html +++ b/class_rules.html @@ -617,7 +617,7 @@

  • Rules
    • -
  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
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  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/class_stats_counter-members.html b/class_stats_counter-members.html index d9926a3ac..8dbe1b4b5 100644 --- a/class_stats_counter-members.html +++ b/class_stats_counter-members.html @@ -118,7 +118,7 @@ diff --git a/class_stats_counter.html b/class_stats_counter.html index fa6a041b2..7d3f43b5b 100644 --- a/class_stats_counter.html +++ b/class_stats_counter.html @@ -519,7 +519,7 @@

  • StatsCounter
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  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
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  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/class_support-members.html b/class_support-members.html index fb559fd7e..79ef0179b 100644 --- a/class_support-members.html +++ b/class_support-members.html @@ -143,7 +143,7 @@ diff --git a/class_support.html b/class_support.html index 1d08b5839..6769da8c3 100644 --- a/class_support.html +++ b/class_support.html @@ -1277,7 +1277,7 @@

  • Support
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  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
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  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/classes.html b/classes.html index c56b16d49..813db6e68 100644 --- a/classes.html +++ b/classes.html @@ -140,7 +140,7 @@ diff --git a/col-bones_8hpp.html b/col-bones_8hpp.html index ecd861720..f7d226bf0 100644 --- a/col-bones_8hpp.html +++ b/col-bones_8hpp.html @@ -104,7 +104,7 @@ diff --git a/col-bones_8hpp_source.html b/col-bones_8hpp_source.html index e597373dd..dfb677b0e 100644 --- a/col-bones_8hpp_source.html +++ b/col-bones_8hpp_source.html @@ -159,7 +159,7 @@ diff --git a/counters-bones_8hpp.html b/counters-bones_8hpp.html index 08906209b..d62fe4121 100644 --- a/counters-bones_8hpp.html +++ b/counters-bones_8hpp.html @@ -125,7 +125,7 @@ diff --git a/counters-bones_8hpp_source.html b/counters-bones_8hpp_source.html index c3cd46b45..cf95ce8f0 100644 --- a/counters-bones_8hpp_source.html +++ b/counters-bones_8hpp_source.html @@ -258,7 +258,7 @@ diff --git a/counters-meat_8hpp.html b/counters-meat_8hpp.html index 86dffef23..6dd7bd253 100644 --- a/counters-meat_8hpp.html +++ b/counters-meat_8hpp.html @@ -1568,7 +1568,7 @@

  • include
  • barry
  • counters-meat.hpp
    • -
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diff --git a/counters-meat_8hpp_source.html b/counters-meat_8hpp_source.html index 7f3600f43..e5e4b1664 100644 --- a/counters-meat_8hpp_source.html +++ b/counters-meat_8hpp_source.html @@ -418,7 +418,7 @@ diff --git a/defm-bones_8hpp.html b/defm-bones_8hpp.html index 63c5eca60..157a0c5e3 100644 --- a/defm-bones_8hpp.html +++ b/defm-bones_8hpp.html @@ -121,7 +121,7 @@ diff --git a/defm-bones_8hpp_source.html b/defm-bones_8hpp_source.html index 9ad7bae8d..be13b2b45 100644 --- a/defm-bones_8hpp_source.html +++ b/defm-bones_8hpp_source.html @@ -216,7 +216,7 @@ diff --git a/defm-meat_8hpp.html b/defm-meat_8hpp.html index 301d52a2b..5b8472c3f 100644 --- a/defm-meat_8hpp.html +++ b/defm-meat_8hpp.html @@ -213,7 +213,7 @@

  • include
  • barry
  • models
  • defm
  • defm-meat.hpp
    • -
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    • +
  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/defm-meat_8hpp_source.html b/defm-meat_8hpp_source.html index f28985322..387e66d1c 100644 --- a/defm-meat_8hpp_source.html +++ b/defm-meat_8hpp_source.html @@ -593,7 +593,7 @@ diff --git a/defm-types_8hpp.html b/defm-types_8hpp.html index 3ae3c39d3..6883f93dc 100644 --- a/defm-types_8hpp.html +++ b/defm-types_8hpp.html @@ -171,7 +171,7 @@

  • include
  • barry
  • models
  • defm
  • defm-types.hpp
    • -
  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
    • +
  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/defm-types_8hpp_source.html b/defm-types_8hpp_source.html index 99837c3d1..aebd6f9df 100644 --- a/defm-types_8hpp_source.html +++ b/defm-types_8hpp_source.html @@ -306,7 +306,7 @@ diff --git a/defm_2counters_8hpp.html b/defm_2counters_8hpp.html index f8c4d37a3..04aa629c9 100644 --- a/defm_2counters_8hpp.html +++ b/defm_2counters_8hpp.html @@ -327,7 +327,7 @@

  • include
  • barry
  • models
  • defm
  • counters.hpp
    • -
  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
    • +
  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/defm_2counters_8hpp_source.html b/defm_2counters_8hpp_source.html index 0e9aee563..89d949725 100644 --- a/defm_2counters_8hpp_source.html +++ b/defm_2counters_8hpp_source.html @@ -797,7 +797,7 @@ diff --git a/defm_8hpp.html b/defm_8hpp.html index f51e4a794..35e820b61 100644 --- a/defm_8hpp.html +++ b/defm_8hpp.html @@ -133,7 +133,7 @@ diff --git a/defm_8hpp_source.html b/defm_8hpp_source.html index 29d1c07c5..ab7d9752f 100644 --- a/defm_8hpp_source.html +++ b/defm_8hpp_source.html @@ -126,7 +126,7 @@ diff --git a/dir_000001_000002.html b/dir_000001_000002.html index 26717082d..6fa1470c1 100644 --- a/dir_000001_000002.html +++ b/dir_000001_000002.html @@ -98,7 +98,7 @@

barry → counters Relation

diff --git a/dir_000003_000004.html b/dir_000003_000004.html index 9dfd1585a..5ea2e6fe6 100644 --- a/dir_000003_000004.html +++ b/dir_000003_000004.html @@ -98,7 +98,7 @@

models → defm Relation

- - + + @@ -282,8 +282,6 @@ - - @@ -344,8 +342,8 @@

Value:
<typename Array_Type, typename Data_Counter_Type,\
typename Data_Rule_Type, typename Data_Rule_Dyn_Type>
-
Data_Counter_Type
template Data_Counter_Type
Definition: model-meat.hpp:1407
-
Data_Rule_Type
template Data_Rule_Type
Definition: model-meat.hpp:1407
+
Data_Counter_Type
template Data_Counter_Type
Definition: model-meat.hpp:1406
+
Data_Rule_Type
template Data_Rule_Type
Definition: model-meat.hpp:1406

Definition at line 128 of file model-meat.hpp.

@@ -389,7 +387,7 @@

-

Definition at line 1317 of file model-meat.hpp.

+

Definition at line 1316 of file model-meat.hpp.

@@ -649,7 +647,7 @@

-

Definition at line 1387 of file model-meat.hpp.

+

Definition at line 1386 of file model-meat.hpp.

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-

Definition at line 1422 of file model-meat.hpp.

+

Definition at line 1421 of file model-meat.hpp.

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-

Definition at line 1427 of file model-meat.hpp.

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Definition at line 1426 of file model-meat.hpp.

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-

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-

Definition at line 1439 of file model-meat.hpp.

+

Definition at line 1438 of file model-meat.hpp.

@@ -1658,7 +1656,7 @@

-

◆ reserve() [1/2]

+

◆ reserve()

@@ -1673,24 +1671,6 @@

-

-
- -

◆ reserve() [2/2]

- -
-
-

  • include
  • barry
  • models
    • -
  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
    • +
  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/dir_000003_000005.html b/dir_000003_000005.html index dc20e56b2..c0bf3394f 100644 --- a/dir_000003_000005.html +++ b/dir_000003_000005.html @@ -98,7 +98,7 @@

models → geese Relation

  • include
  • barry
  • models
    • -
  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
    • +
  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
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Geese
Annotated Phylo Model.
Definition: geese-bones.hpp:103
i
size_t i
Definition: counters-meat.hpp:83
noexcept
Data_Type &&counter_ noexcept
Definition: counters-meat.hpp:27
-
PhyloCounters
barry::Counters< PhyloArray, PhyloCounterData > PhyloCounters
Definition: geese-types.hpp:103
-
PhyloModel
barry::Model< PhyloArray, PhyloCounterData, PhyloRuleData, PhyloRuleDynData > PhyloModel
Definition: geese-types.hpp:113
-
PhyloSupport
barry::Support< PhyloArray, PhyloCounterData, PhyloRuleData, PhyloRuleDynData > PhyloSupport
Definition: geese-types.hpp:111
+
PhyloCounters
barry::Counters< PhyloArray, PhyloCounterData > PhyloCounters
Definition: geese-types.hpp:106
+
PhyloModel
barry::Model< PhyloArray, PhyloCounterData, PhyloRuleData, PhyloRuleDynData > PhyloModel
Definition: geese-types.hpp:116
+
PhyloSupport
barry::Support< PhyloArray, PhyloCounterData, PhyloRuleData, PhyloRuleDynData > PhyloSupport
Definition: geese-types.hpp:114
BARRY_PROGRESS_BAR_WIDTH
#define BARRY_PROGRESS_BAR_WIDTH
Definition: progress.hpp:5
@@ -196,7 +196,7 @@ diff --git a/flock-meat_8hpp.html b/flock-meat_8hpp.html index 07e58ac05..2c303bd4c 100644 --- a/flock-meat_8hpp.html +++ b/flock-meat_8hpp.html @@ -113,7 +113,7 @@ diff --git a/flock-meat_8hpp_source.html b/flock-meat_8hpp_source.html index efbeeaeba..53b1e4a2a 100644 --- a/flock-meat_8hpp_source.html +++ b/flock-meat_8hpp_source.html @@ -439,9 +439,9 @@
noexcept
Data_Type &&counter_ noexcept
Definition: counters-meat.hpp:27
INITIALIZED
#define INITIALIZED()
Definition: geese-bones.hpp:22
keygen_full
std::vector< double > keygen_full(const PhyloArray &array, const PhyloCounterData *d)
Definition: geese-bones.hpp:36
-
PhyloCounters
barry::Counters< PhyloArray, PhyloCounterData > PhyloCounters
Definition: geese-types.hpp:103
-
PhyloModel
barry::Model< PhyloArray, PhyloCounterData, PhyloRuleData, PhyloRuleDynData > PhyloModel
Definition: geese-types.hpp:113
-
PhyloSupport
barry::Support< PhyloArray, PhyloCounterData, PhyloRuleData, PhyloRuleDynData > PhyloSupport
Definition: geese-types.hpp:111
+
PhyloCounters
barry::Counters< PhyloArray, PhyloCounterData > PhyloCounters
Definition: geese-types.hpp:106
+
PhyloModel
barry::Model< PhyloArray, PhyloCounterData, PhyloRuleData, PhyloRuleDynData > PhyloModel
Definition: geese-types.hpp:116
+
PhyloSupport
barry::Support< PhyloArray, PhyloCounterData, PhyloRuleData, PhyloRuleDynData > PhyloSupport
Definition: geese-types.hpp:114
a
size_t a
Definition: model-meat.hpp:1287
size
return arrays2support size() - 1u
@@ -450,7 +450,7 @@ diff --git a/formula_8hpp.html b/formula_8hpp.html index 44f5dcf15..2a0ca7e2f 100644 --- a/formula_8hpp.html +++ b/formula_8hpp.html @@ -206,7 +206,7 @@

Transition effects

diff --git a/formula_8hpp_source.html b/formula_8hpp_source.html index 701b1a2f6..8c174b438 100644 --- a/formula_8hpp_source.html +++ b/formula_8hpp_source.html @@ -288,7 +288,7 @@ diff --git a/freqtable_8hpp.html b/freqtable_8hpp.html index cc4251f14..d400914ca 100644 --- a/freqtable_8hpp.html +++ b/freqtable_8hpp.html @@ -122,7 +122,7 @@ diff --git a/freqtable_8hpp_source.html b/freqtable_8hpp_source.html index 19f465642..d6f4006f5 100644 --- a/freqtable_8hpp_source.html +++ b/freqtable_8hpp_source.html @@ -357,7 +357,7 @@ diff --git a/functions.html b/functions.html index 54ff80cf6..1854d08ab 100644 --- a/functions.html +++ b/functions.html @@ -159,7 +159,7 @@

- a -

    diff --git a/functions_b.html b/functions_b.html index 43e300fc1..7dc472f91 100644 --- a/functions_b.html +++ b/functions_b.html @@ -192,7 +192,7 @@

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      diff --git a/functions_c.html b/functions_c.html index 93c4a87da..0508f1e5e 100644 --- a/functions_c.html +++ b/functions_c.html @@ -203,7 +203,7 @@

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        diff --git a/functions_d.html b/functions_d.html index 25ee9f6b7..46a487cc6 100644 --- a/functions_d.html +++ b/functions_d.html @@ -166,7 +166,7 @@

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          diff --git a/functions_e.html b/functions_e.html index 95d2e804c..6b55e4072 100644 --- a/functions_e.html +++ b/functions_e.html @@ -137,7 +137,7 @@

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            diff --git a/functions_f.html b/functions_f.html index 69d00147e..3e8a9709d 100644 --- a/functions_f.html +++ b/functions_f.html @@ -113,7 +113,7 @@

            - f -

              diff --git a/functions_func.html b/functions_func.html index 079683440..146129158 100644 --- a/functions_func.html +++ b/functions_func.html @@ -140,7 +140,7 @@

              - a -

                diff --git a/functions_func_b.html b/functions_func_b.html index f66178949..ce18ec8c3 100644 --- a/functions_func_b.html +++ b/functions_func_b.html @@ -151,7 +151,7 @@

                - b -

                  diff --git a/functions_func_c.html b/functions_func_c.html index 874c504da..dc7942821 100644 --- a/functions_func_c.html +++ b/functions_func_c.html @@ -155,7 +155,7 @@

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class  PhyloRuleDynData
 
+ + + +

+Macros

#define POS(a, b)   (b)*N + (a)
 
@@ -148,6 +154,37 @@

Typedefs

Convenient typedefs for Node objects.
typedef barry::PowerSet< PhyloArray, PhyloRuleData > PhyloPowerSet
 
+

Macro Definition Documentation

+ +

◆ POS

+ +
+
+ + + + + + + + + + + + + + + + + + +
#define POS( a,
 b 
)   (b)*N + (a)
+
+ +

Definition at line 4 of file geese-types.hpp.

+ +
+

Typedef Documentation

◆ PhyloArray

@@ -161,7 +198,7 @@

-

Definition at line 101 of file geese-types.hpp.

+

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+

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+

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-

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+

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+

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+

Definition at line 112 of file geese-types.hpp.

@@ -321,7 +358,7 @@

-

Definition at line 112 of file geese-types.hpp.

+

Definition at line 115 of file geese-types.hpp.

@@ -337,7 +374,7 @@

-

Definition at line 111 of file geese-types.hpp.

+

Definition at line 114 of file geese-types.hpp.

@@ -347,7 +384,7 @@

  • include
  • barry
  • models
  • geese
  • geese-types.hpp
    • -
  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
    • +
  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/geese-types_8hpp.js b/geese-types_8hpp.js index 61e0e45c1..42429c64f 100644 --- a/geese-types_8hpp.js +++ b/geese-types_8hpp.js @@ -3,6 +3,7 @@ var geese_types_8hpp = [ "NodeData", "class_node_data.html", "class_node_data" ], [ "PhyloCounterData", "class_phylo_counter_data.html", "class_phylo_counter_data" ], [ "PhyloRuleDynData", "class_phylo_rule_dyn_data.html", "class_phylo_rule_dyn_data" ], + [ "POS", "geese-types_8hpp.html#abf33b097799b4bfe44ec4477c592b0b9", null ], [ "PhyloArray", "geese-types_8hpp.html#a3f0cae5b6ac5c728612da24e8aa3b5f6", null ], [ "PhyloCounter", "geese-types_8hpp.html#aa13d1499132f5fb228d2b2077672b376", null ], [ "PhyloCounters", "geese-types_8hpp.html#a23d267147d3dde4bbbd4c298f0aed64d", null ], diff --git a/geese-types_8hpp_source.html b/geese-types_8hpp_source.html index d76e2cef8..f28b47001 100644 --- a/geese-types_8hpp_source.html +++ b/geese-types_8hpp_source.html @@ -98,143 +98,183 @@
Go to the documentation of this file.
1 #ifndef GEESE_TYPES_HPP
2 #define GEESE_TYPES_HPP
-
12 class NodeData {
-
13 public:
-
14 
-
18  std::vector< double > blengths = {};
-
19 
-
23  std::vector< bool > states = {};
-
24 
-
28  bool duplication = true;
-
29 
-
30  // NodeData() : blengths(0u), states(0u) {};
-
31 
-
32  NodeData(
-
33  const std::vector< double > & blengths_,
-
34  const std::vector< bool > & states_,
-
35  bool duplication_ = true
-
36  ) : blengths(blengths_), states(states_), duplication(duplication_) {};
-
37 
-
38  // ~NodeData() {};
-
39 
-
40 };
-
41 
-
42 class PhyloCounterData {
-
43 private:
-
44  std::vector< size_t > data;
-
45  std::vector< double > * counters;
-
46 
-
47 public:
-
48  PhyloCounterData(
-
49  std::vector< size_t > data_,
-
50  std::vector< double > * counters_ = nullptr
-
51  ) : data(data_), counters(counters_) {};
-
52 
-
53  PhyloCounterData() : data(0u) {};
-
54 
-
55  size_t at(size_t d) {return data.at(d);};
-
56  size_t operator()(size_t d) {return data.at(d);};
-
57  size_t operator[](size_t d) {return data[d];};
-
58  void reserve(size_t x) {return data.reserve(x);};
-
59  void push_back(size_t x) {return data.push_back(x);};
-
60  void shrink_to_fit() {return data.shrink_to_fit();};
-
61  size_t size() {return data.size();};
-
62 
-
63  std::vector< size_t >::iterator begin() {return data.begin();};
-
64  std::vector< size_t >::iterator end() {return data.end();};
+
3 
+
4 #define POS(a,b) (b)*N + (a)
+
5 
+
15 class NodeData {
+
16 public:
+
17 
+
21  std::vector< double > blengths = {};
+
22 
+
26  std::vector< bool > states = {};
+
27 
+
31  bool duplication = true;
+
32 
+
33  // NodeData() : blengths(0u), states(0u) {};
+
34 
+
35  NodeData(
+
36  const std::vector< double > & blengths_,
+
37  const std::vector< bool > & states_,
+
38  bool duplication_ = true
+
39  ) : blengths(blengths_), states(states_), duplication(duplication_) {};
+
40 
+
41  // ~NodeData() {};
+
42 
+
43 };
+
44 
+
45 class PhyloCounterData {
+
46 private:
+
47  std::vector< size_t > data;
+
48  std::vector< double > * counters;
+
49 
+
50 public:
+
51  PhyloCounterData(
+
52  std::vector< size_t > data_,
+
53  std::vector< double > * counters_ = nullptr
+
54  ) : data(data_), counters(counters_) {};
+
55 
+
56  PhyloCounterData() : data(0u) {};
+
57 
+
58  size_t at(size_t d) {return data.at(d);};
+
59  size_t operator()(size_t d) {return data.at(d);};
+
60  size_t operator[](size_t d) {return data[d];};
+
61  void reserve(size_t x) {return data.reserve(x);};
+
62  void push_back(size_t x) {return data.push_back(x);};
+
63  void shrink_to_fit() {return data.shrink_to_fit();};
+
64  size_t size() {return data.size();};
65 
-
66  bool empty() {return data.empty();};
-
67  std::vector< double > * get_counters() {return counters;};
+
66  std::vector< size_t >::iterator begin() {return data.begin();};
+
67  std::vector< size_t >::iterator end() {return data.end();};
68 
-
69 };
-
70 
-
71 class PhyloRuleDynData {
-
72 public:
-
73  const std::vector< double > * counts;
-
74  size_t pos;
-
75  size_t lb;
-
76  size_t ub;
-
77  size_t duplication;
-
78 
-
79  PhyloRuleDynData(
-
80  const std::vector< double > * counts_,
-
81  size_t pos_,
-
82  size_t lb_,
-
83  size_t ub_,
-
84  size_t duplication_
-
85  ) :
-
86  counts(counts_), pos(pos_), lb(lb_), ub(ub_), duplication(duplication_) {};
-
87 
-
88  const double operator()() const
-
89  {
-
90  return (*counts)[pos];
-
91  }
-
92 
-
93  ~PhyloRuleDynData() {};
-
94 
-
95 };
-
96 
-
97 
-
98 typedef std::vector< std::pair< size_t, size_t > > PhyloRuleData;
+
69  bool empty() {return data.empty();};
+
70  std::vector< double > * get_counters() {return counters;};
+
71 
+
72 };
+
73 
+
74 class PhyloRuleDynData {
+
75 public:
+
76  const std::vector< double > * counts;
+
77  size_t pos;
+
78  size_t lb;
+
79  size_t ub;
+
80  size_t duplication;
+
81 
+
82  PhyloRuleDynData(
+
83  const std::vector< double > * counts_,
+
84  size_t pos_,
+
85  size_t lb_,
+
86  size_t ub_,
+
87  size_t duplication_
+
88  ) :
+
89  counts(counts_), pos(pos_), lb(lb_), ub(ub_), duplication(duplication_) {};
+
90 
+
91  const double operator()() const
+
92  {
+
93  return (*counts)[pos];
+
94  }
+
95 
+
96  ~PhyloRuleDynData() {};
+
97 
+
98 };
99 
-
101 typedef barry::BArrayDense<size_t, NodeData> PhyloArray;
-
102 typedef barry::Counter<PhyloArray, PhyloCounterData > PhyloCounter;
-
103 typedef barry::Counters< PhyloArray, PhyloCounterData> PhyloCounters;
-
104 
-
105 typedef barry::Rule<PhyloArray,PhyloRuleData> PhyloRule;
-
106 typedef barry::Rules<PhyloArray,PhyloRuleData> PhyloRules;
+
100 
+
101 typedef std::vector< std::pair< size_t, size_t > > PhyloRuleData;
+
102 
+
104 typedef barry::BArrayDense<size_t, NodeData> PhyloArray;
+
105 typedef barry::Counter<PhyloArray, PhyloCounterData > PhyloCounter;
+
106 typedef barry::Counters< PhyloArray, PhyloCounterData> PhyloCounters;
107 
-
108 typedef barry::Rule<PhyloArray,PhyloRuleDynData> PhyloRuleDyn;
-
109 typedef barry::Rules<PhyloArray,PhyloRuleDynData> PhyloRulesDyn;
+
108 typedef barry::Rule<PhyloArray,PhyloRuleData> PhyloRule;
+
109 typedef barry::Rules<PhyloArray,PhyloRuleData> PhyloRules;
110 
-
111 typedef barry::Support<PhyloArray, PhyloCounterData, PhyloRuleData, PhyloRuleDynData > PhyloSupport;
-
112 typedef barry::StatsCounter<PhyloArray, PhyloCounterData> PhyloStatsCounter;
-
113 typedef barry::Model<PhyloArray, PhyloCounterData, PhyloRuleData, PhyloRuleDynData > PhyloModel;
-
114 typedef barry::PowerSet<PhyloArray, PhyloRuleData> PhyloPowerSet;
-
116 
-
117 #endif
-
NodeData
Data definition for the PhyloArray class.
Definition: geese-types.hpp:12
-
NodeData::blengths
std::vector< double > blengths
Definition: geese-types.hpp:18
-
NodeData::NodeData
NodeData(const std::vector< double > &blengths_, const std::vector< bool > &states_, bool duplication_=true)
Definition: geese-types.hpp:32
-
NodeData::states
std::vector< bool > states
Definition: geese-types.hpp:23
-
NodeData::duplication
bool duplication
Definition: geese-types.hpp:28
- - -
PhyloCounterData::operator()
size_t operator()(size_t d)
Definition: geese-types.hpp:56
-
PhyloCounterData::end
std::vector< size_t >::iterator end()
Definition: geese-types.hpp:64
-
PhyloCounterData::PhyloCounterData
PhyloCounterData(std::vector< size_t > data_, std::vector< double > *counters_=nullptr)
Definition: geese-types.hpp:48
-
PhyloCounterData::at
size_t at(size_t d)
Definition: geese-types.hpp:55
- -
PhyloCounterData::push_back
void push_back(size_t x)
Definition: geese-types.hpp:59
-
PhyloCounterData::begin
std::vector< size_t >::iterator begin()
Definition: geese-types.hpp:63
-
PhyloCounterData::reserve
void reserve(size_t x)
Definition: geese-types.hpp:58
-
PhyloCounterData::get_counters
std::vector< double > * get_counters()
Definition: geese-types.hpp:67
- - -
PhyloCounterData::operator[]
size_t operator[](size_t d)
Definition: geese-types.hpp:57
- - - -
PhyloRuleDynData::operator()
const double operator()() const
Definition: geese-types.hpp:88
- -
PhyloRuleDynData::PhyloRuleDynData
PhyloRuleDynData(const std::vector< double > *counts_, size_t pos_, size_t lb_, size_t ub_, size_t duplication_)
Definition: geese-types.hpp:79
- - -
PhyloRuleDynData::counts
const std::vector< double > * counts
Definition: geese-types.hpp:73
+
111 typedef barry::Rule<PhyloArray,PhyloRuleDynData> PhyloRuleDyn;
+
112 typedef barry::Rules<PhyloArray,PhyloRuleDynData> PhyloRulesDyn;
+
113 
+
114 typedef barry::Support<PhyloArray, PhyloCounterData, PhyloRuleData, PhyloRuleDynData > PhyloSupport;
+
115 typedef barry::StatsCounter<PhyloArray, PhyloCounterData> PhyloStatsCounter;
+
116 typedef barry::Model<PhyloArray, PhyloCounterData, PhyloRuleData, PhyloRuleDynData > PhyloModel;
+
117 typedef barry::PowerSet<PhyloArray, PhyloRuleData> PhyloPowerSet;
+
119 
+
120 // template<>
+
121 // inline void PhyloArray::insert_cell(
+
122 // size_t i,
+
123 // size_t j,
+
124 // const Cell< size_t > & v,
+
125 // bool check_bounds,
+
126 // bool
+
127 // ) {
+
128 
+
129 // if (check_bounds)
+
130 // out_of_range(i,j);
+
131 
+
132 // auto & elptr = el[POS(i,j)];
+
133 
+
134 // if (elptr == 0u)
+
135 // {
+
136 
+
137 // el_rowsums[i] += v.value;
+
138 // el_colsums[j] += v.value;
+
139 
+
140 // }
+
141 // else
+
142 // {
+
143 
+
144 // el_rowsums[i] += (v.value - elptr);
+
145 // el_colsums[j] += (v.value - elptr);
+
146 
+
147 // }
+
148 
+
149 // elptr = v.value;
+
150 
+
151 // return;
+
152 
+
153 // }
+
154 
+
155 #undef POS
+
156 
+
157 #endif
+
NodeData
Data definition for the PhyloArray class.
Definition: geese-types.hpp:15
+
NodeData::blengths
std::vector< double > blengths
Definition: geese-types.hpp:21
+
NodeData::NodeData
NodeData(const std::vector< double > &blengths_, const std::vector< bool > &states_, bool duplication_=true)
Definition: geese-types.hpp:35
+
NodeData::states
std::vector< bool > states
Definition: geese-types.hpp:26
+
NodeData::duplication
bool duplication
Definition: geese-types.hpp:31
+ + +
PhyloCounterData::operator()
size_t operator()(size_t d)
Definition: geese-types.hpp:59
+
PhyloCounterData::end
std::vector< size_t >::iterator end()
Definition: geese-types.hpp:67
+
PhyloCounterData::PhyloCounterData
PhyloCounterData(std::vector< size_t > data_, std::vector< double > *counters_=nullptr)
Definition: geese-types.hpp:51
+
PhyloCounterData::at
size_t at(size_t d)
Definition: geese-types.hpp:58
+ +
PhyloCounterData::push_back
void push_back(size_t x)
Definition: geese-types.hpp:62
+
PhyloCounterData::begin
std::vector< size_t >::iterator begin()
Definition: geese-types.hpp:66
+
PhyloCounterData::reserve
void reserve(size_t x)
Definition: geese-types.hpp:61
+
PhyloCounterData::get_counters
std::vector< double > * get_counters()
Definition: geese-types.hpp:70
+ + +
PhyloCounterData::operator[]
size_t operator[](size_t d)
Definition: geese-types.hpp:60
+ + + +
PhyloRuleDynData::operator()
const double operator()() const
Definition: geese-types.hpp:91
+ +
PhyloRuleDynData::PhyloRuleDynData
PhyloRuleDynData(const std::vector< double > *counts_, size_t pos_, size_t lb_, size_t ub_, size_t duplication_)
Definition: geese-types.hpp:82
+ + +
PhyloRuleDynData::counts
const std::vector< double > * counts
Definition: geese-types.hpp:76
data
Data_Type &&counter_ data(std::move(counter_.data))
data_
Data_Type Counter_fun_type< Array_Type, Data_Type > Hasher_fun_type< Array_Type, Data_Type > Data_Type data_
Definition: counters-meat.hpp:182
-
PhyloCounters
barry::Counters< PhyloArray, PhyloCounterData > PhyloCounters
Definition: geese-types.hpp:103
-
PhyloModel
barry::Model< PhyloArray, PhyloCounterData, PhyloRuleData, PhyloRuleDynData > PhyloModel
Definition: geese-types.hpp:113
-
PhyloRuleData
std::vector< std::pair< size_t, size_t > > PhyloRuleData
Definition: geese-types.hpp:98
-
PhyloRule
barry::Rule< PhyloArray, PhyloRuleData > PhyloRule
Definition: geese-types.hpp:105
-
PhyloArray
barry::BArrayDense< size_t, NodeData > PhyloArray
Definition: geese-types.hpp:101
-
PhyloCounter
barry::Counter< PhyloArray, PhyloCounterData > PhyloCounter
Definition: geese-types.hpp:102
-
PhyloStatsCounter
barry::StatsCounter< PhyloArray, PhyloCounterData > PhyloStatsCounter
Definition: geese-types.hpp:112
-
PhyloRuleDyn
barry::Rule< PhyloArray, PhyloRuleDynData > PhyloRuleDyn
Definition: geese-types.hpp:108
-
PhyloRulesDyn
barry::Rules< PhyloArray, PhyloRuleDynData > PhyloRulesDyn
Definition: geese-types.hpp:109
-
PhyloPowerSet
barry::PowerSet< PhyloArray, PhyloRuleData > PhyloPowerSet
Definition: geese-types.hpp:114
-
PhyloSupport
barry::Support< PhyloArray, PhyloCounterData, PhyloRuleData, PhyloRuleDynData > PhyloSupport
Definition: geese-types.hpp:111
-
PhyloRules
barry::Rules< PhyloArray, PhyloRuleData > PhyloRules
Definition: geese-types.hpp:106
+
PhyloCounters
barry::Counters< PhyloArray, PhyloCounterData > PhyloCounters
Definition: geese-types.hpp:106
+
PhyloModel
barry::Model< PhyloArray, PhyloCounterData, PhyloRuleData, PhyloRuleDynData > PhyloModel
Definition: geese-types.hpp:116
+
PhyloRuleData
std::vector< std::pair< size_t, size_t > > PhyloRuleData
Definition: geese-types.hpp:101
+
PhyloRule
barry::Rule< PhyloArray, PhyloRuleData > PhyloRule
Definition: geese-types.hpp:108
+
PhyloArray
barry::BArrayDense< size_t, NodeData > PhyloArray
Definition: geese-types.hpp:104
+
PhyloCounter
barry::Counter< PhyloArray, PhyloCounterData > PhyloCounter
Definition: geese-types.hpp:105
+
PhyloStatsCounter
barry::StatsCounter< PhyloArray, PhyloCounterData > PhyloStatsCounter
Definition: geese-types.hpp:115
+
PhyloRuleDyn
barry::Rule< PhyloArray, PhyloRuleDynData > PhyloRuleDyn
Definition: geese-types.hpp:111
+
PhyloRulesDyn
barry::Rules< PhyloArray, PhyloRuleDynData > PhyloRulesDyn
Definition: geese-types.hpp:112
+
PhyloPowerSet
barry::PowerSet< PhyloArray, PhyloRuleData > PhyloPowerSet
Definition: geese-types.hpp:117
+
PhyloSupport
barry::Support< PhyloArray, PhyloCounterData, PhyloRuleData, PhyloRuleDynData > PhyloSupport
Definition: geese-types.hpp:114
+
PhyloRules
barry::Rules< PhyloArray, PhyloRuleData > PhyloRules
Definition: geese-types.hpp:109
counters_
Data_Counter_Type * counters_
Definition: model-meat.hpp:344
@@ -243,7 +283,7 @@ diff --git a/geese_2counters_8hpp.html b/geese_2counters_8hpp.html index 3e6117e22..604177687 100644 --- a/geese_2counters_8hpp.html +++ b/geese_2counters_8hpp.html @@ -215,7 +215,7 @@ diff --git a/geese_2counters_8hpp_source.html b/geese_2counters_8hpp_source.html index 591a3b38f..9da42a47e 100644 --- a/geese_2counters_8hpp_source.html +++ b/geese_2counters_8hpp_source.html @@ -2102,14 +2102,14 @@
Geese::etype_duplication
static const size_t etype_duplication
Definition: geese-bones.hpp:158
Geese::etype_speciation
static const size_t etype_speciation
Definition: geese-bones.hpp:157
Geese::etype_default
static const size_t etype_default
Definition: geese-bones.hpp:156
- - + +
res
return res
Definition: counters-meat.hpp:265
data
Data_Type &&counter_ data(std::move(counter_.data))
i
size_t i
Definition: counters-meat.hpp:83
j
size_t size_t j
Definition: counters-meat.hpp:84
-
PhyloCounters
barry::Counters< PhyloArray, PhyloCounterData > PhyloCounters
Definition: geese-types.hpp:103
-
PhyloSupport
barry::Support< PhyloArray, PhyloCounterData, PhyloRuleData, PhyloRuleDynData > PhyloSupport
Definition: geese-types.hpp:111
+
PhyloCounters
barry::Counters< PhyloArray, PhyloCounterData > PhyloCounters
Definition: geese-types.hpp:106
+
PhyloSupport
barry::Support< PhyloArray, PhyloCounterData, PhyloRuleData, PhyloRuleDynData > PhyloSupport
Definition: geese-types.hpp:114
counter_overall_gains
void counter_overall_gains(PhyloCounters *counters, size_t duplication=Geese::etype_default)
Overall functional gains.
Definition: counters.hpp:58
counter_neofun_a2b
void counter_neofun_a2b(PhyloCounters *counters, size_t nfunA, size_t nfunB, size_t duplication=Geese::etype_default)
Total number of neofunctionalization events.
Definition: counters.hpp:1163
counter_k_genes_changing
void counter_k_genes_changing(PhyloCounters *counters, size_t k, size_t duplication=Geese::etype_default)
Indicator function. Equals to one if genes changed and zero otherwise.
Definition: counters.hpp:1394
@@ -2149,7 +2149,7 @@ diff --git a/geese_8hpp.html b/geese_8hpp.html index 30f322858..6375bc253 100644 --- a/geese_8hpp.html +++ b/geese_8hpp.html @@ -148,7 +148,7 @@ diff --git a/geese_8hpp_source.html b/geese_8hpp_source.html index 4c7af536c..4d2ddaaaa 100644 --- a/geese_8hpp_source.html +++ b/geese_8hpp_source.html @@ -146,7 +146,7 @@ diff --git a/globals.html b/globals.html index dc0a39f76..570daf954 100644 --- a/globals.html +++ b/globals.html @@ -107,7 +107,7 @@

- a -

 
 if ((probs.size() > 0u) &&(vec_equal_approx(params, params_last[a])))
 
temp_stats reserve (params.size())
 
std::vector< double > temp_stats (params.size())
 
 for (size_t array=0u;array< probs.size();++array)
 
 MODEL_TEMPLATE (double, conditional_prob)(const Array_Type &Array_
 
 else
 
std::vector< double > temp_stats
 
const std::vector< double > & stats = pset_stats[a]
 
int i_matches = -1
- - - - - - - -
temp_stats reserve (params. size())
-
-
@@ -1780,6 +1760,24 @@

+ + + +

◆ temp_stats()

+ +
+
+ + + + + + + + +
std::vector< double > temp_stats (params. size())
+
+
@@ -1993,7 +1991,7 @@

-

Definition at line 1407 of file model-meat.hpp.

+

Definition at line 1406 of file model-meat.hpp.

@@ -2009,7 +2007,7 @@

-

Definition at line 1407 of file model-meat.hpp.

+

Definition at line 1406 of file model-meat.hpp.

@@ -2062,7 +2060,7 @@

a
size_t a
Definition: model-meat.hpp:1287
size
return arrays2support size() - 1u
probs
std::vector< double > & probs
Definition: model-meat.hpp:1298
-
pset_arrays
return this pset_arrays[a][j]
Definition: model-meat.hpp:1350
+
pset_arrays
return this pset_arrays[a][j]
Definition: model-meat.hpp:1349

Definition at line 1309 of file model-meat.hpp.

@@ -2136,7 +2134,7 @@

-

Definition at line 1316 of file model-meat.hpp.

+

Definition at line 1315 of file model-meat.hpp.

@@ -2269,7 +2267,7 @@

-

Definition at line 1350 of file model-meat.hpp.

+

Definition at line 1349 of file model-meat.hpp.

@@ -2390,7 +2388,7 @@

-

Definition at line 1314 of file model-meat.hpp.

+

Definition at line 1313 of file model-meat.hpp.

@@ -2408,22 +2406,6 @@

Definition at line 560 of file model-meat.hpp.

- - - -

◆ temp_stats

- -
-
- - - - -
std::vector< double > temp_stats
-
- -

Definition at line 1312 of file model-meat.hpp.

-
@@ -2438,7 +2420,7 @@

-

Definition at line 1369 of file model-meat.hpp.

+

Definition at line 1368 of file model-meat.hpp.

@@ -2448,7 +2430,7 @@

  • include
  • barry
  • model-meat.hpp
    • -
  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
    • +
  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/model-meat_8hpp.js b/model-meat_8hpp.js index 33708d67b..4d808e40f 100644 --- a/model-meat_8hpp.js +++ b/model-meat_8hpp.js @@ -47,12 +47,12 @@ var model_meat_8hpp = [ "push_back", "model-meat_8hpp.html#acd4c62abc3c4daf9fb8a68d8e4bd1634", null ], [ "push_back", "model-meat_8hpp.html#ac76d416dfa2e5dceea5f830850ea25ac", null ], [ "reserve", "model-meat_8hpp.html#a0851b3fce6040febb01e2484ed9f4f54", null ], - [ "reserve", "model-meat_8hpp.html#a4f77465f435b5af47b19d1ac4a7c3638", null ], [ "return", "model-meat_8hpp.html#a9ef4985dfa4bd1115422568aac975f7e", null ], [ "set_counters", "model-meat_8hpp.html#a891cce5f86ba09c4e4a5202a5f6021b9", null ], [ "set_rules", "model-meat_8hpp.html#ab636ea2105a33446971af2dc40618a47", null ], [ "set_rules_dyn", "model-meat_8hpp.html#ae09eaba6614a37ca52770bbaf18a876c", null ], [ "size", "model-meat_8hpp.html#a8d73b944a5569bd842f636e4b9d420f6", null ], + [ "temp_stats", "model-meat_8hpp.html#ade0c4a5bb093e62686d62f2dd009bd25", null ], [ "update_normalizing_constant", "model-meat_8hpp.html#a298affefd54bd00274c6af4dd64053be", null ], [ "urand", "model-meat_8hpp.html#ac41994c414d968a397a48b933272453f", null ], [ "a", "model-meat_8hpp.html#a81e02a278aaeae99b5dbef355ee6dd2f", null ], @@ -86,6 +86,5 @@ var model_meat_8hpp = [ "rules_dyn", "model-meat_8hpp.html#aabe2227b11b09aa9567f8e6b282c3f57", null ], [ "stats", "model-meat_8hpp.html#ada7a2adf3edef6b8859ce756bd31e4b6", null ], [ "stats_support_n_arrays", "model-meat_8hpp.html#a067bec3fe3db997771ba2ce3868cbda7", null ], - [ "temp_stats", "model-meat_8hpp.html#a131b560d408069dcb92dd037e4bc5eb8", null ], [ "tmp_counts", "model-meat_8hpp.html#aaf06149bb923f3f75878c8217fd5c94e", null ] ]; \ No newline at end of file diff --git a/model-meat_8hpp_source.html b/model-meat_8hpp_source.html index 29db750aa..902b00bee 100644 --- a/model-meat_8hpp_source.html +++ b/model-meat_8hpp_source.html @@ -180,9 +180,9 @@
87  numerator += *(stats_target + j) * params[j];
88 
89  if (!log_)
-
90  numerator = exp(numerator BARRY_SAFE_EXP);
+
90  numerator = std::exp(numerator BARRY_SAFE_EXP);
91  else
-
92  return numerator BARRY_SAFE_EXP - log(normalizing_constant);
+
92  return numerator BARRY_SAFE_EXP - std::log(normalizing_constant);
93 
94  double ans = numerator/normalizing_constant;
95 
@@ -1230,7 +1230,7 @@
1142  } else {
1143 
1144  probs.resize(pset_arrays[a].size());
-
1145  std::vector< double > temp_stats(params.size());
+
1145  std::vector< double > temp_stats(params.size());
1146  const std::vector< double > & stats = pset_stats[a];
1147 
1148  int i_matches = -1;
@@ -1239,9 +1239,9 @@
1151 
1152  // Filling out the parameters
1153  for (auto p = 0u; p < params.size(); ++p)
-
1154  temp_stats[p] = stats[array * k + p];
+
1154  temp_stats[p] = stats[array * k + p];
1155 
-
1156  probs[array] = this->likelihood(params, temp_stats, i, false);
+
1156  probs[array] = this->likelihood(params, temp_stats, i, false);
1157  cumprob += probs[array];
1158 
1159  if (i_matches == -1 && cumprob >= r)
@@ -1395,224 +1395,223 @@
1309  } else {
1310 
1311  probs.resize(pset_arrays[a].size());
-
1312  std::vector< double > temp_stats;
-
1313  temp_stats.reserve(params.size());
-
1314  const std::vector< double > & stats = pset_stats[a];
-
1315 
-
1316  int i_matches = -1;
-
1317  for (size_t array = 0u; array < probs.size(); ++array)
-
1318  {
-
1319 
-
1320  // Filling out the parameters
-
1321  for (auto p = 0u; p < params.size(); ++p)
-
1322  temp_stats.push_back(stats[array * k + p]);
-
1323 
-
1324  probs[array] = this->likelihood(params, temp_stats, i, false);
-
1325  cumprob += probs[array];
-
1326 
-
1327  if (i_matches == -1 && cumprob >= r)
-
1328  i_matches = array;
-
1329  }
-
1330 
-
1331  #ifdef BARRY_DEBUG
-
1332  if (i_matches < 0)
-
1333  throw std::logic_error(
-
1334  std::string(
-
1335  "Something went wrong when sampling from a different set of.") +
-
1336  std::string("parameters. Please report this bug: ") +
-
1337  std::string(" cumprob: ") + std::to_string(cumprob) +
-
1338  std::string(" r: ") + std::to_string(r)
-
1339  );
-
1340  #endif
-
1341 
-
1342  j = i_matches;
-
1343 
-
1344  }
-
1345 
-
1346 
-
1347  #ifdef BARRY_DEBUG
-
1348  return this->pset_arrays.at(a).at(j);
-
1349  #else
-
1350  return this->pset_arrays[a][j];
-
1351  #endif
-
1352 
-
1353 }
-
1354 
-
1355 MODEL_TEMPLATE(double, conditional_prob)(
-
1356  const Array_Type & Array_,
-
1357  const std::vector< double > & params,
-
1358  size_t i,
-
1359  size_t j
-
1360 ) {
-
1361 
-
1362  // Generating a copy of the array so we can update
-
1363  Array_Type A(Array_, true);
-
1364 
-
1365  // Making sure we add it first
-
1366  A.insert_cell(i, j, A.default_val(), true, false);
-
1367 
-
1368  // Computing the change stats_target
-
1369  std::vector< double > tmp_counts;
-
1370  tmp_counts.reserve(counters->size());
-
1371  for (size_t ii = 0u; ii < counters->size(); ++ii)
-
1372  tmp_counts.push_back(counters->operator[](ii).count(A, i, j));
-
1373 
-
1374  // If there is a transformation function, it needs to be
-
1375  // applied before dealing with the likelihood.
-
1376  if (transform_model_fun)
-
1377  tmp_counts = transform_model_fun(&tmp_counts[0u], tmp_counts.size());
-
1378 
-
1379  return 1.0/
-
1380  (1.0 + std::exp(-vec_inner_prod<double>(
-
1381  &params[0u], &tmp_counts[0u], params.size()
-
1382  )));
-
1383 
-
1384 
-
1385 }
-
1386 
-
1387 MODEL_TEMPLATE(const std::mt19937 *, get_rengine)() const {
-
1388  return this->rengine;
-
1389 }
-
1390 
-
1391 template MODEL_TEMPLATE_ARGS()
-
1392 inline Counters<Array_Type,Data_Counter_Type> * MODEL_TYPE()::get_counters() {
-
1393  return this->counters;
-
1394 }
-
1395 
-
1396 template MODEL_TEMPLATE_ARGS()
-
1397 inline Rules<Array_Type,Data_Rule_Type> * MODEL_TYPE()::get_rules() {
-
1398  return this->rules;
-
1399 }
-
1400 
-
1401 template MODEL_TEMPLATE_ARGS()
-
1402 inline Rules<Array_Type,Data_Rule_Dyn_Type> * MODEL_TYPE()::get_rules_dyn() {
-
1403  return this->rules_dyn;
-
1404 }
-
1405 
-
1406 template MODEL_TEMPLATE_ARGS()
-
1407 inline Support<Array_Type,Data_Counter_Type,Data_Rule_Type,Data_Rule_Dyn_Type> *
-
1408 MODEL_TYPE()::get_support_fun() {
-
1409  return &this->support_fun;
-
1410 }
-
1411 
-
1412 MODEL_TEMPLATE(std::vector< std::vector< double > > *, get_stats_target)()
-
1413 {
-
1414  return &stats_target;
-
1415 }
-
1416 
-
1417 MODEL_TEMPLATE(std::vector< std::vector< double > > *, get_stats_support)()
-
1418 {
-
1419  return &stats_support;
-
1420 }
-
1421 
-
1422 MODEL_TEMPLATE(std::vector< size_t > *, get_arrays2support)()
-
1423 {
-
1424  return &arrays2support;
-
1425 }
-
1426 
-
1427 MODEL_TEMPLATE(std::vector< std::vector< Array_Type > > *, get_pset_arrays)() {
-
1428  return &pset_arrays;
-
1429 }
-
1430 
-
1431 MODEL_TEMPLATE(std::vector< std::vector<double> > *, get_pset_stats)() {
-
1432  return &pset_stats;
-
1433 }
-
1434 
-
1435 MODEL_TEMPLATE(std::vector< std::vector<double> > *, get_pset_probs)() {
-
1436  return &pset_probs;
-
1437 }
-
1438 
-
1439 MODEL_TEMPLATE(void, set_transform_model)(
-
1440  std::function<std::vector<double>(double *,size_t)> fun,
-
1441  std::vector< std::string > names
-
1442  )
-
1443 {
-
1444 
-
1445  if (transform_model_fun)
-
1446  throw std::logic_error("A transformation function for the model has already been established.");
-
1447 
-
1448  transform_model_fun = fun;
-
1449  transform_model_term_names = names;
-
1450 
-
1451  size_t k = counters->size();
-
1452 
-
1453  // Applying over the support
-
1454  for (auto & s : stats_support)
-
1455  {
-
1456 
-
1457  // Making room for the new support
-
1458  std::vector< double > s_new(0u);
-
1459  s_new.reserve(s.size());
-
1460 
-
1461  size_t n = s.size() / (k + 1u);
-
1462 
-
1463  // Iterating through the unique sets
-
1464  for (size_t i = 0; i < n; ++i)
-
1465  {
-
1466 
-
1467  // Appending size
-
1468  s_new.push_back(s[i * (k + 1u)]);
-
1469 
-
1470  // Applying transformation and adding to the new set
-
1471  auto res = transform_model_fun(&s[i * (k + 1u) + 1u], k);
-
1472 
-
1473  if (res.size() != transform_model_term_names.size())
-
1474  throw std::length_error("The transform vector from -transform_model_fun- does not match the size of -transform_model_term_names-.");
-
1475 
-
1476  std::copy(res.begin(), res.end(), std::back_inserter(s_new));
-
1477 
-
1478  }
-
1479 
-
1480  // Exchanging with the original
-
1481  std::swap(s, s_new);
-
1482 
-
1483  }
-
1484 
-
1485  // Applying over the target statistics
-
1486  for (auto & s : stats_target)
-
1487  s = transform_model_fun(&s[0u], k);
-
1488 
-
1489  // Checking if there is support included
-
1490  if (with_pset)
-
1491  {
-
1492 
-
1493  // Applying it to the support
-
1494  for (auto s = 0u; s < pset_arrays.size(); ++s)
-
1495  {
-
1496  std::vector< double > new_stats;
-
1497 
-
1498  for (auto a = 0u; a < pset_arrays[s].size(); ++a)
-
1499  {
-
1500  // Computing the transformed version of the data
-
1501  auto tmpstats = transform_model_fun(
-
1502  &pset_stats[s][a * k], k
-
1503  );
-
1504 
-
1505  // Storing the new values
-
1506  for (auto p = 0u; p < k; ++p)
-
1507  new_stats.push_back(tmpstats[p]);
-
1508  }
-
1509 
-
1510  // Updating the dataset
-
1511  std::swap(pset_stats[s], new_stats);
-
1512 
-
1513  }
-
1514 
-
1515  }
-
1516 
-
1517  // And, resizing the last set of parameters
-
1518  for (auto & p : params_last)
-
1519  p.resize(transform_model_term_names.size());
-
1520 
-
1521  return;
-
1522 
-
1523 }
-
1524 
-
1525 #undef MODEL_TEMPLATE
-
1526 #undef MODEL_TEMPLATE_ARGS
-
1527 #undef MODEL_TYPE
-
1528 
-
1529 #endif
+
1312  std::vector< double > temp_stats(params.size());
+
1313  const std::vector< double > & stats = pset_stats[a];
+
1314 
+
1315  int i_matches = -1;
+
1316  for (size_t array = 0u; array < probs.size(); ++array)
+
1317  {
+
1318 
+
1319  // Filling out the parameters
+
1320  for (auto p = 0u; p < params.size(); ++p)
+
1321  temp_stats[p] = stats[array * k + p];
+
1322 
+
1323  probs[array] = this->likelihood(params, temp_stats, i, false);
+
1324  cumprob += probs[array];
+
1325 
+
1326  if (i_matches == -1 && cumprob >= r)
+
1327  i_matches = array;
+
1328  }
+
1329 
+
1330  #ifdef BARRY_DEBUG
+
1331  if (i_matches < 0)
+
1332  throw std::logic_error(
+
1333  std::string(
+
1334  "Something went wrong when sampling from a different set of.") +
+
1335  std::string("parameters. Please report this bug: ") +
+
1336  std::string(" cumprob: ") + std::to_string(cumprob) +
+
1337  std::string(" r: ") + std::to_string(r)
+
1338  );
+
1339  #endif
+
1340 
+
1341  j = i_matches;
+
1342 
+
1343  }
+
1344 
+
1345 
+
1346  #ifdef BARRY_DEBUG
+
1347  return this->pset_arrays.at(a).at(j);
+
1348  #else
+
1349  return this->pset_arrays[a][j];
+
1350  #endif
+
1351 
+
1352 }
+
1353 
+
1354 MODEL_TEMPLATE(double, conditional_prob)(
+
1355  const Array_Type & Array_,
+
1356  const std::vector< double > & params,
+
1357  size_t i,
+
1358  size_t j
+
1359 ) {
+
1360 
+
1361  // Generating a copy of the array so we can update
+
1362  Array_Type A(Array_, true);
+
1363 
+
1364  // Making sure we add it first
+
1365  A.insert_cell(i, j, A.default_val(), true, false);
+
1366 
+
1367  // Computing the change stats_target
+
1368  std::vector< double > tmp_counts;
+
1369  tmp_counts.reserve(counters->size());
+
1370  for (size_t ii = 0u; ii < counters->size(); ++ii)
+
1371  tmp_counts.push_back(counters->operator[](ii).count(A, i, j));
+
1372 
+
1373  // If there is a transformation function, it needs to be
+
1374  // applied before dealing with the likelihood.
+
1375  if (transform_model_fun)
+
1376  tmp_counts = transform_model_fun(&tmp_counts[0u], tmp_counts.size());
+
1377 
+
1378  return 1.0/
+
1379  (1.0 + std::exp(-vec_inner_prod<double>(
+
1380  &params[0u], &tmp_counts[0u], params.size()
+
1381  )));
+
1382 
+
1383 
+
1384 }
+
1385 
+
1386 MODEL_TEMPLATE(const std::mt19937 *, get_rengine)() const {
+
1387  return this->rengine;
+
1388 }
+
1389 
+
1390 template MODEL_TEMPLATE_ARGS()
+
1391 inline Counters<Array_Type,Data_Counter_Type> * MODEL_TYPE()::get_counters() {
+
1392  return this->counters;
+
1393 }
+
1394 
+
1395 template MODEL_TEMPLATE_ARGS()
+
1396 inline Rules<Array_Type,Data_Rule_Type> * MODEL_TYPE()::get_rules() {
+
1397  return this->rules;
+
1398 }
+
1399 
+
1400 template MODEL_TEMPLATE_ARGS()
+
1401 inline Rules<Array_Type,Data_Rule_Dyn_Type> * MODEL_TYPE()::get_rules_dyn() {
+
1402  return this->rules_dyn;
+
1403 }
+
1404 
+
1405 template MODEL_TEMPLATE_ARGS()
+
1406 inline Support<Array_Type,Data_Counter_Type,Data_Rule_Type,Data_Rule_Dyn_Type> *
+
1407 MODEL_TYPE()::get_support_fun() {
+
1408  return &this->support_fun;
+
1409 }
+
1410 
+
1411 MODEL_TEMPLATE(std::vector< std::vector< double > > *, get_stats_target)()
+
1412 {
+
1413  return &stats_target;
+
1414 }
+
1415 
+
1416 MODEL_TEMPLATE(std::vector< std::vector< double > > *, get_stats_support)()
+
1417 {
+
1418  return &stats_support;
+
1419 }
+
1420 
+
1421 MODEL_TEMPLATE(std::vector< size_t > *, get_arrays2support)()
+
1422 {
+
1423  return &arrays2support;
+
1424 }
+
1425 
+
1426 MODEL_TEMPLATE(std::vector< std::vector< Array_Type > > *, get_pset_arrays)() {
+
1427  return &pset_arrays;
+
1428 }
+
1429 
+
1430 MODEL_TEMPLATE(std::vector< std::vector<double> > *, get_pset_stats)() {
+
1431  return &pset_stats;
+
1432 }
+
1433 
+
1434 MODEL_TEMPLATE(std::vector< std::vector<double> > *, get_pset_probs)() {
+
1435  return &pset_probs;
+
1436 }
+
1437 
+
1438 MODEL_TEMPLATE(void, set_transform_model)(
+
1439  std::function<std::vector<double>(double *,size_t)> fun,
+
1440  std::vector< std::string > names
+
1441  )
+
1442 {
+
1443 
+
1444  if (transform_model_fun)
+
1445  throw std::logic_error("A transformation function for the model has already been established.");
+
1446 
+
1447  transform_model_fun = fun;
+
1448  transform_model_term_names = names;
+
1449 
+
1450  size_t k = counters->size();
+
1451 
+
1452  // Applying over the support
+
1453  for (auto & s : stats_support)
+
1454  {
+
1455 
+
1456  // Making room for the new support
+
1457  std::vector< double > s_new(0u);
+
1458  s_new.reserve(s.size());
+
1459 
+
1460  size_t n = s.size() / (k + 1u);
+
1461 
+
1462  // Iterating through the unique sets
+
1463  for (size_t i = 0; i < n; ++i)
+
1464  {
+
1465 
+
1466  // Appending size
+
1467  s_new.push_back(s[i * (k + 1u)]);
+
1468 
+
1469  // Applying transformation and adding to the new set
+
1470  auto res = transform_model_fun(&s[i * (k + 1u) + 1u], k);
+
1471 
+
1472  if (res.size() != transform_model_term_names.size())
+
1473  throw std::length_error("The transform vector from -transform_model_fun- does not match the size of -transform_model_term_names-.");
+
1474 
+
1475  std::copy(res.begin(), res.end(), std::back_inserter(s_new));
+
1476 
+
1477  }
+
1478 
+
1479  // Exchanging with the original
+
1480  std::swap(s, s_new);
+
1481 
+
1482  }
+
1483 
+
1484  // Applying over the target statistics
+
1485  for (auto & s : stats_target)
+
1486  s = transform_model_fun(&s[0u], k);
+
1487 
+
1488  // Checking if there is support included
+
1489  if (with_pset)
+
1490  {
+
1491 
+
1492  // Applying it to the support
+
1493  for (auto s = 0u; s < pset_arrays.size(); ++s)
+
1494  {
+
1495  std::vector< double > new_stats;
+
1496 
+
1497  for (auto a = 0u; a < pset_arrays[s].size(); ++a)
+
1498  {
+
1499  // Computing the transformed version of the data
+
1500  auto tmpstats = transform_model_fun(
+
1501  &pset_stats[s][a * k], k
+
1502  );
+
1503 
+
1504  // Storing the new values
+
1505  for (auto p = 0u; p < k; ++p)
+
1506  new_stats.push_back(tmpstats[p]);
+
1507  }
+
1508 
+
1509  // Updating the dataset
+
1510  std::swap(pset_stats[s], new_stats);
+
1511 
+
1512  }
+
1513 
+
1514  }
+
1515 
+
1516  // And, resizing the last set of parameters
+
1517  for (auto & p : params_last)
+
1518  p.resize(transform_model_term_names.size());
+
1519 
+
1520  return;
+
1521 
+
1522 }
+
1523 
+
1524 #undef MODEL_TEMPLATE
+
1525 #undef MODEL_TEMPLATE_ARGS
+
1526 #undef MODEL_TYPE
+
1527 
+
1528 #endif
printf_barry
#define printf_barry
Definition: barry-configuration.hpp:51
BARRY_SAFE_EXP
#define BARRY_SAFE_EXP
Definition: barry-configuration.hpp:33
Counter
A counter function based on change statistics.
Definition: counters-bones.hpp:35
@@ -1647,15 +1646,14 @@
res
return res
Definition: counters-meat.hpp:265
noexcept
Data_Type &&counter_ noexcept
Definition: counters-meat.hpp:27
stats_support_n_arrays
stats_support_n_arrays[locator->second]
Definition: model-meat.hpp:560
-
i_matches
int i_matches
Definition: model-meat.hpp:1316
-
temp_stats
std::vector< double > temp_stats
Definition: model-meat.hpp:1312
+
i_matches
int i_matches
Definition: model-meat.hpp:1315
rules_
Data_Rule_Type * rules_
Definition: model-meat.hpp:380
count_fun_
Data_Counter_Type count_fun_
Definition: model-meat.hpp:327
update_normalizing_constant
double update_normalizing_constant(const double *params, const double *support, size_t k, size_t n)
Definition: model-meat.hpp:9
force_new
bool force_new
Definition: model-meat.hpp:437
j
size_t j
Definition: model-meat.hpp:1297
likelihood_
double likelihood_(const double *stats_target, const std::vector< double > &params, const double normalizing_constant, size_t n_params, bool log_=false)
Definition: model-meat.hpp:63
-
Data_Counter_Type
template Data_Counter_Type
Definition: model-meat.hpp:1407
+
Data_Counter_Type
template Data_Counter_Type
Definition: model-meat.hpp:1406
counter
Data_Counter_Type & counter
Definition: model-meat.hpp:320
a
size_t a
Definition: model-meat.hpp:1287
r
double r
Definition: model-meat.hpp:1291
@@ -1671,18 +1669,19 @@
counters_
Data_Counter_Type * counters_
Definition: model-meat.hpp:344
init_fun_
Data_Counter_Type Counter_fun_type< Array_Type, Data_Counter_Type > init_fun_
Definition: model-meat.hpp:328
rules_dyn
this rules_dyn
Definition: model-meat.hpp:424
-
tmp_counts
std::vector< double > tmp_counts
Definition: model-meat.hpp:1369
+
tmp_counts
std::vector< double > tmp_counts
Definition: model-meat.hpp:1368
probs
std::vector< double > & probs
Definition: model-meat.hpp:1298
set_rules
support_fun set_rules(rules)
-
Data_Rule_Type
template Data_Rule_Type
Definition: model-meat.hpp:1407
+
Data_Rule_Type
template Data_Rule_Type
Definition: model-meat.hpp:1406
fun_
Data_Counter_Type fun_
Definition: model-meat.hpp:361
urand
std::uniform_real_distribution urand(0, 1)
MODEL_TYPE
#define MODEL_TYPE()
Definition: model-meat.hpp:125
locator
MapVec_type< double, size_t >::const_iterator locator
Definition: model-meat.hpp:456
rule_fun_
Data_Rule_Dyn_Type rule_fun_
Definition: model-meat.hpp:404
-
stats
const std::vector< double > & stats
Definition: model-meat.hpp:1314
-
pset_arrays
return this pset_arrays[a][j]
Definition: model-meat.hpp:1350
+
stats
const std::vector< double > & stats
Definition: model-meat.hpp:1313
+
pset_arrays
return this pset_arrays[a][j]
Definition: model-meat.hpp:1349
data_
Data_Counter_Type Counter_fun_type< Array_Type, Data_Counter_Type > Data_Counter_Type data_
Definition: model-meat.hpp:330
+
temp_stats
std::vector< double > temp_stats(params.size())
set_rules_dyn
support_fun set_rules_dyn(rules_dyn)
cumprob
double cumprob
Definition: model-meat.hpp:1292
key
std::vector< double > key
Definition: model-meat.hpp:455
@@ -1700,7 +1699,7 @@ diff --git a/modules.html b/modules.html index 5357c8448..1dac8357d 100644 --- a/modules.html +++ b/modules.html @@ -110,7 +110,7 @@ diff --git a/namespace_c_h_e_c_k.html b/namespace_c_h_e_c_k.html index d37f863f5..4d4d95bc9 100644 --- a/namespace_c_h_e_c_k.html +++ b/namespace_c_h_e_c_k.html @@ -186,7 +186,7 @@

  • CHECK
    • -
  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
    • +
  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/namespace_e_x_i_s_t_s.html b/namespace_e_x_i_s_t_s.html index bcde747e8..8fca7a9d4 100644 --- a/namespace_e_x_i_s_t_s.html +++ b/namespace_e_x_i_s_t_s.html @@ -240,7 +240,7 @@

  • EXISTS
    • -
  • Generated on Wed Sep 27 2023 05:06:59 for barry: Your go-to motif accountant by doxygen 1.9.1
    • +
  • Generated on Wed Sep 27 2023 05:36:06 for barry: Your go-to motif accountant by doxygen 1.9.1
diff --git a/namespacebarry.html b/namespacebarry.html index fa8c1ddd1..530af7e71 100644 --- a/namespacebarry.html +++ b/namespacebarry.html @@ -116,7 +116,7 @@ diff --git a/namespacebarry_1_1counters.html b/namespacebarry_1_1counters.html index e9b0fdace..e9086be0a 100644 --- a/namespacebarry_1_1counters.html +++ b/namespacebarry_1_1counters.html @@ -115,7 +115,7 @@ diff --git a/namespacebarry_1_1counters_1_1network.html b/namespacebarry_1_1counters_1_1network.html index b319030f6..3065b3b2b 100644 --- a/namespacebarry_1_1counters_1_1network.html +++ b/namespacebarry_1_1counters_1_1network.html @@ -102,7 +102,7 @@ diff --git a/namespacedefm.html b/namespacedefm.html index 488db079c..337ee925d 100644 --- a/namespacedefm.html +++ b/namespacedefm.html @@ -102,7 +102,7 @@ diff --git a/namespacegeese.html b/namespacegeese.html index 420cc06e6..08f9e0976 100644 --- a/namespacegeese.html +++ b/namespacegeese.html @@ -102,7 +102,7 @@ diff --git a/namespacemembers.html b/namespacemembers.html index 299eef582..1409dbc9d 100644 --- a/namespacemembers.html +++ b/namespacemembers.html @@ -124,7 +124,7 @@ diff --git a/namespacemembers_vars.html b/namespacemembers_vars.html index f0f5ca37b..496ba6391 100644 --- a/namespacemembers_vars.html +++ b/namespacemembers_vars.html @@ -124,7 +124,7 @@ diff --git a/navtreedata.js b/navtreedata.js index 38b4f8414..d705cef23 100644 --- a/navtreedata.js +++ b/navtreedata.js @@ -60,9 +60,9 @@ var NAVTREEINDEX = "class_b_array_dense.html#ac9bffd75ad8701f67c5c148583d38246", "class_freq_table.html#aaedc785570175889a224d6ebaab6ffa7", "class_rules.html#ab87544febb8301772164570708bd708e", -"globals_d.html", -"group__rules-phylo.html#ga66b7a40df357b79514dcbc4accfe679d", -"support-meat_8hpp_source.html" +"globals_c.html", +"group__rules-phylo.html#ga637f2c896da37c0f3a72bd0174ca718c", +"support-meat_8hpp.html#a1e1a05136f3cb63f283b317a8c7f7e7c" ]; var SYNCONMSG = 'click to disable panel synchronisation'; diff --git a/navtreeindex3.js b/navtreeindex3.js index 3faa5c296..54f45b755 100644 --- a/navtreeindex3.js +++ b/navtreeindex3.js @@ -229,18 +229,19 @@ var NAVTREEINDEX3 = "geese-node-bones_8hpp.html":[3,0,0,0,1,1,12], "geese-node-bones_8hpp_source.html":[3,0,0,0,1,1,12], "geese-types_8hpp.html":[3,0,0,0,1,1,13], -"geese-types_8hpp.html#a23d267147d3dde4bbbd4c298f0aed64d":[3,0,0,0,1,1,13,5], -"geese-types_8hpp.html#a295e1042dd5ede0902719e8ba9756561":[3,0,0,0,1,1,13,6], -"geese-types_8hpp.html#a359d952b83e6ea8675c6ac65916a1cc0":[3,0,0,0,1,1,13,9], -"geese-types_8hpp.html#a3637552ed3c8487108c5e36a36a4a3e7":[3,0,0,0,1,1,13,8], -"geese-types_8hpp.html#a3f0cae5b6ac5c728612da24e8aa3b5f6":[3,0,0,0,1,1,13,3], -"geese-types_8hpp.html#aa13d1499132f5fb228d2b2077672b376":[3,0,0,0,1,1,13,4], -"geese-types_8hpp.html#aaa0d31fa9451a9d932757a6e8b2e63a5":[3,0,0,0,1,1,13,13], -"geese-types_8hpp.html#ab98d083cd1e07929c2076ef99c5f2762":[3,0,0,0,1,1,13,10], -"geese-types_8hpp.html#ac548afdd21aee0bee668edce3a6e17eb":[3,0,0,0,1,1,13,12], 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= "globals_func_p.html":[3,1,1,12], "globals_func_r.html":[3,1,1,13], "globals_func_s.html":[3,1,1,14], -"globals_func_u.html":[3,1,1,15], -"globals_func_v.html":[3,1,1,16], +"globals_func_t.html":[3,1,1,15], +"globals_func_u.html":[3,1,1,16], +"globals_func_v.html":[3,1,1,17], "globals_g.html":[3,1,0,6], "globals_h.html":[3,1,0,7], "globals_i.html":[3,1,0,8], @@ -67,8 +69,8 @@ var NAVTREEINDEX4 = "group__counters-network.html#ga54be4f2afc03d8616c60ed148219865f":[3,0,0,0,0,1,23], "group__counters-network.html#ga558e4e627e5d99062d4c5546c443aabb":[0,2,2], "group__counters-network.html#ga558e4e627e5d99062d4c5546c443aabb":[3,0,0,0,0,1,21], -"group__counters-network.html#ga566a9b46297af03dbb898aa9713657da":[0,2,3], "group__counters-network.html#ga566a9b46297af03dbb898aa9713657da":[3,0,0,0,0,1,22], +"group__counters-network.html#ga566a9b46297af03dbb898aa9713657da":[0,2,3], "group__counters-network.html#ga5a83cfba69ea83fca5831478055bbc6a":[3,0,0,0,1,0,0,9], 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i
size_t i
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data_
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Definition: counters-meat.hpp:182
noexcept
Data_Type &&counter_ noexcept
Definition: counters-meat.hpp:27
-
Data_Rule_Type
template Data_Rule_Type
Definition: model-meat.hpp:1407
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Data_Rule_Type
template Data_Rule_Type
Definition: model-meat.hpp:1406
Rule_fun_type
std::function< bool(const Array_Type &, size_t, size_t, Data_Type &)> Rule_fun_type
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data_
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Definition: counters-meat.hpp:182
rules
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Definition: model-meat.hpp:371
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Data_Rule_Type
template Data_Rule_Type
Definition: model-meat.hpp:1407
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Data_Rule_Type
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rule_fun_
Data_Rule_Dyn_Type rule_fun_
Definition: model-meat.hpp:404
Rule_fun_type
std::function< bool(const Array_Type &, size_t, size_t, Data_Type &)> Rule_fun_type
Definition: typedefs.hpp:190
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Definition: counters-meat.hpp:84
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Definition: model-meat.hpp:1407
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