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/**
* PLL (version 1.0.0) a software library for phylogenetic inference
* Copyright (C) 2013 Tomas Flouri and Alexandros Stamatakis
*
* Derived from
* RAxML-HPC, a program for sequential and parallel estimation of phylogenetic
* trees by Alexandros Stamatakis
*
* This program is free software: you can redistribute it and/or modify it
* under the terms of the GNU General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option)
* any later version.
*
* This program is distributed in the hope that it will be useful, but WITHOUT
* ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or
* FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for
* more details.
*
* You should have received a copy of the GNU General Public License along with
* this program. If not, see <http://www.gnu.org/licenses/>.
*
* For any other enquiries send an Email to Tomas Flouri
* Tomas.Flouri@h-its.org
*
* When publishing work that uses PLL please cite PLL
*
* @file errcodes.h
*/
#ifndef ERRCODES_H
#define ERRCODES_H
#define PLL_ERROR_FILE_OPEN 1 /**< Error while opening file */
#define PLL_ERROR_INVALID_FILETYPE 2 /**< Invalid fileType given at pllParseAlignmeFile */
#define PLL_NNI_P_TIP 1 << 0 /**< Node p is a tip */
#define PLL_NNI_Q_TIP 1 << 1 /**< Node p->back is a tip */
#define PLL_PARTITION_OUT_OF_BOUNDS 1 << 0 /**< Trying to access a partition index that is out of bounds */
#define PLL_BASE_FREQUENCIES_DO_NOT_SUM_TO_1 1 << 1 /**< base frequencies don't sum to 1.0 */
#define PLL_LINKAGE_LIST_OUT_OF_BOUNDS 1 << 0 /**< trying to link a partition index that is out of bounds */
#define PLL_SUBSTITUTION_RATE_OUT_OF_BOUNDS 1 << 0 /**< trying to set a substitution rate to a value that is out of bounds */
#define PLL_INVALID_Q_MATRIX_SYMMETRY 1 << 1 /**< specifyng an invalid parameter symmetry in the Q matrix */
#define PLL_Q_MATRIX_SYMMETRY_OUT_OF_BOUNDS 1 << 2 /**<specifying a Q matrix symmetry that is out of bounds */
#define PLL_UNKNOWN_MOLECULAR_DATA_TYPE 1 << 0 /**<PLL is trying to do something for an unknown data type */
#define PLL_INCONSISTENT_SUBST_RATE_OPTIMIZATION_SETTING 1 << 0 /**<PLL detected an inconsistent setting for the Q matrix rate optimization */
#define PLL_INCONSISTENT_Q_MATRIX_SYMMETRIES_ACROSS_LINKED_PARTITIONS 1 << 1 /**<Q matrix symmetry vector is not identical for linked partitions */
#define PLL_INCONSISTENT_Q_MATRIX_ENTRIES_ACROSS_LINKED_PARTITIONS 1 << 2 /**<Q matrix entries are not identical for linked partitions */
#define PLL_INCONSISTENT_ALPHA_STATES_ACROSS_LINKED_PARTITIONS 1 << 3 /**<alpha states are not identical across linked partitions */
#define PLL_INCONSISTENT_ALPHA_VALUES_ACROSS_LINKED_PARTITIONS 1 << 4 /**<alpha values are not identical across linked partitions */
#define PLL_INCONSISTENT_FREQUENCY_STATES_ACROSS_LINKED_PARTITIONS 1 << 5 /**<frequency states are not identical across linked partitions */
#define PLL_INCONSISTENT_FREQUENCY_VALUES_ACROSS_LINKED_PARTITIONS 1 << 6 /**<frequency values are not identical across linked partitions */
#define PLL_NEWICK_ROOTED_TREE 1 << 0 /**< @brief Binary root detected */
#define PLL_NEWICK_BAD_STRUCTURE 1 << 1 /**< @brief Errornous tree detected */
#define PLL_ERROR_PHYLIP_HEADER_SYNTAX 5
#define PLL_ERROR_PHYLIP_BODY_SYNTAX 6
#define PLL_ERROR_FASTA_SYNTAX 7
#endif
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