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*                                                                              *
*      cosmo - Constrained search for motifs in DNA sequences                  *
*      Authors: Oliver Bembom, Fabian Gallusser, and Sandrine Dudoit           *
*                                                                              *
*      Conditions of use:                                                      *
*                                                                              *
*    1. cosmo is under the exclusive copyright of Oliver Bembom,               *
*       (bembom@berkeley.edu), the Regents of the University of California,    *
*       and Peter Spellucci (spellucci@mathematik.tu-darmstadt.de).            *
*                                                                              *
*    2. Permission to use, copy, modify, and distribute any part of this       *
*       software for research purposes, without fee and without a written      *
*       agreement, is hereby granted, provided that this license appears in    *
*       all copies. Commercial uses require permission and licensing from      *
*       Oliver Bembom, the Regents of the University of California, and        *
*       Peter Spellucci.                                                       *
*                                                                              *
*    3. If you use this software in your research, please cite                 *
*                                                                              *
*       O. Bembom, S. Keles, M.J. van der Laan (2007). Supervised Detection    *
*       of Conserved Motifs in DNA Sequences with cosmo. Statistical           *
*       Applications in Genetics and Molecular Biology: Vol. 6 : Iss. 1,       *
*       Article 8. http://www.bepress.com/sagmb/vol6/iss1/art8.                *
*                                                                              *
*       cosmo makes use of the donlp2() function by Peter Spellucci.           *
*       The use of donlp2() must be acknowledged in any publication which      *
*       contains results obtained with cosmo or parts of it. Citation of the   *
*       author's name and netlib-source is suitable.                           *
*                                                                              *
*    4. In no event shall the authors be liable to any party for direct, in-   *
*       direct, special, incidental, or consequential damages, including lost  *
*       profits, arising out of the use of this software, even if the authors  *
*       have been advised of the possibility of such damage.                   *
*                                                                              *
*    5. cosmo is provided on an 'as is' basis, and the authors have no obli-   *
*       gations to provide maintenance, support, updates, enhancements, or     *
*       modifications. The authors make no representations and extends no      *
*       warranties of any kind, either expressed or implied, including, but    *
*       not limited to, the implied warranties of merchantability or fitness   *
*       for a particular purpose, or that the use of the material will not     *
*       infringe any patent, trademark or other rights.                        *
*                                                                              *
*                                                                              *
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*                                                                              *
*      puma - Propagating Uncertainty in Microarray Analysis                   *
*      Authors: Richard D. Pearson, Xuejun Liu, Magnus Rattray,                *
*               Marta Milo, Neil D. Lawrence, Guido Sanguinetti                *
*                                                                              *
*    puma uses donlp which has the following conditions of use:                *
*                                                                              *
* 1. donlp2 is under the exclusive copyright of P. Spellucci                   *
*    (e-mail:spellucci@mathematik.tu-darmstadt.de)                             *
*    "donlp2" is a reserved name                                               *
* 2. donlp2 and its constituent parts come with no warranty, whether ex-       *
*    pressed or implied, that it is free of errors or suitable for any         *
*    specific purpose.                                                         *
*    It must not be used to solve any problem, whose incorrect solution        *
*    could result in injury to a person , institution or property.             *
*    It is at the users own risk to use donlp2 or parts of it and the          *
*    author disclaims all liability for such use.                              *
* 3. donlp2 is distributed "as is". In particular, no maintenance, support     *
*    or trouble-shooting or subsequent upgrade is implied.                     *
* 4. The use of donlp2 must be acknowledged, in any publication which          * 
*    contains                                                                  *
*    results obtained with it or parts of it. Citation of the authors name     *
*    and netlib-source is suitable.                                            *
* 5. The free use of donlp2 and parts of it is restricted for research         *
*    purposes                                                                  *
*    commercial uses require permission and licensing from P. Spellucci.       *
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