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annotate COPYING @ 6:3ad7ef0ba385 draft

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Use <stdio> because prokka writes some warnings on stderr. Update Orione citation. Update Prokka citation. Support Prokka 1.10. Upgrade dependencies to package_minced_0_1_6, package_barrnap_0_5 and package_tbl2asn_23_7. Added --proteins option. Add <citations>.
author crs4
date Mon, 27 Oct 2014 06:45:52 -0400
parents b9fea998270a
children f5e44aad6498
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b9fea998270a Fix Prokka 1.8 dependency installation.
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1 Copyright © 2013-2014 CRS4 Srl. http://www.crs4.it/
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4bafaa074484 Merge with Lionel Guy's wrapper. Directly call prokka, remove prokka.py . Add locustag, increment, gffver, compliant, addgenes, genus, species, strain, plasmid, gcode, usegenus, metagenome, fast, evalue, norrna, notrna params. Update BLAST+ dependency to 2.2.28. Add dependencies on prodigal and barrnap. Add readme.rst .
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2 Copyright © 2013 Lionel Guy
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3 Created by:
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4 Paolo Uva <paolo.uva@crs4.it>
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5 Nicola Soranzo <nicola.soranzo@crs4.it>
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4bafaa074484 Merge with Lionel Guy's wrapper. Directly call prokka, remove prokka.py . Add locustag, increment, gffver, compliant, addgenes, genus, species, strain, plasmid, gcode, usegenus, metagenome, fast, evalue, norrna, notrna params. Update BLAST+ dependency to 2.2.28. Add dependencies on prodigal and barrnap. Add readme.rst .
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6 Lionel Guy <lionel.guy@icm.uu.se>
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3ad7ef0ba385 Use <stdio> because prokka writes some warnings on stderr. Update Orione citation. Update Prokka citation. Support Prokka 1.10. Upgrade dependencies to package_minced_0_1_6, package_barrnap_0_5 and package_tbl2asn_23_7. Added --proteins option. Add <citations>.
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7 Philip Mabon <philipmabon@gmail.com>
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8
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9 Permission is hereby granted, free of charge, to any person obtaining a
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10 copy of this software and associated documentation files (the
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11 "Software"), to deal in the Software without restriction, including
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12 without limitation the rights to use, copy, modify, merge, publish,
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13 distribute, sublicense, and/or sell copies of the Software, and to
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14 permit persons to whom the Software is furnished to do so, subject to
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15 the following conditions:
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16
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17 The above copyright notice and this permission notice shall be included
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18 in all copies or substantial portions of the Software.
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19
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20 THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS
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21 OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
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22 MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT.
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23 IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY
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24 CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT,
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25 TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE
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26 SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.