Mercurial > repos > iuc > emboss_needle

annotate macros.xml @ 0:2f0dc62d0a19 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
author iuc
date Mon, 20 Jan 2025 16:22:05 +0000
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0
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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diff changeset
1 <macros>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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2 <token name="@PROFILE@">23.1</token>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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3 <token name="@VERSION@">6.6.0</token>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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4 <xml name="requirements">
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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5 <requirements>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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6 <requirement type="package" version="@VERSION@">emboss</requirement>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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7 <requirement type="package" version="5.26">perl</requirement>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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8 </requirements>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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9 </xml>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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10 <xml name="bio_tools">
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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11 <xrefs>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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12 <xref type="bio.tools">emboss</xref>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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13 </xrefs>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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14 </xml>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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15 <xml name="citations">
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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16 <citations>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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17 <citation type="doi">10.1016/S0168-9525(00)02024-2</citation>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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18 <citation type="doi">10.1101/gr.5578007</citation>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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19 <yield />
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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20 </citations>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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21 </xml>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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22
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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23 <xml name="scoring_matrix">
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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24 <param argument="-datafile" type="select" optional="true" label="Scoring matrix" help="This is the scoring matrix used when comparing sequences. By default it is EBLOSUM62 (for proteins) or EDNAFULL (for nucleic sequences)">
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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25 <option value="EBLOSUM30">EBLOSUM30</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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26 <option value="EBLOSUM35">EBLOSUM35</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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27 <option value="EBLOSUM40">EBLOSUM40</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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28 <option value="EBLOSUM45">EBLOSUM45</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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29 <option value="EBLOSUM50">EBLOSUM50</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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30 <option value="EBLOSUM55">EBLOSUM55</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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31 <option value="EBLOSUM60">EBLOSUM60</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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32 <option value="EBLOSUM62">EBLOSUM62</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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33 <option value="EBLOSUM62-12">EBLOSUM62-12</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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34 <option value="EBLOSUM65">EBLOSUM65</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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35 <option value="EBLOSUM70">EBLOSUM70</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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36 <option value="EBLOSUM75">EBLOSUM75</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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37 <option value="EBLOSUM80">EBLOSUM80</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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38 <option value="EBLOSUM85">EBLOSUM85</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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39 <option value="EBLOSUM90">EBLOSUM90</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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40 <option value="EBLOSUMN">EBLOSUMN</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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41 <option value="EDNAFULL">EDNAFULL</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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42 <option value="EDNAMAT">EDNAMAT</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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43 <option value="EDNASIMPLE">EDNASIMPLE</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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44 <option value="ENUC.4.2">ENUC.4.2</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
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45 <option value="ENUC.4.4">ENUC.4.4</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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46 <option value="EPAM10">EPAM10</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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47 <option value="EPAM100">EPAM100</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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48 <option value="EPAM110">EPAM110</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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49 <option value="EPAM120">EPAM120</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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50 <option value="EPAM130">EPAM130</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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51 <option value="EPAM140">EPAM140</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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52 <option value="EPAM150">EPAM150</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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53 <option value="EPAM160">EPAM160</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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54 <option value="EPAM170">EPAM170</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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55 <option value="EPAM180">EPAM180</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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56 <option value="EPAM190">EPAM190</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
diff changeset
57 <option value="EPAM20">EPAM20</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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58 <option value="EPAM200">EPAM200</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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59 <option value="EPAM210">EPAM210</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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60 <option value="EPAM220">EPAM220</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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61 <option value="EPAM230">EPAM230</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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62 <option value="EPAM240">EPAM240</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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63 <option value="EPAM250">EPAM250</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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64 <option value="EPAM260">EPAM260</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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65 <option value="EPAM270">EPAM270</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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66 <option value="EPAM280">EPAM280</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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67 <option value="EPAM290">EPAM290</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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68 <option value="EPAM30">EPAM30</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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69 <option value="EPAM300">EPAM300</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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70 <option value="EPAM310">EPAM310</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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71 <option value="EPAM320">EPAM320</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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72 <option value="EPAM330">EPAM330</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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73 <option value="EPAM340">EPAM340</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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74 <option value="EPAM350">EPAM350</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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75 <option value="EPAM360">EPAM360</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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76 <option value="EPAM370">EPAM370</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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77 <option value="EPAM380">EPAM380</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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78 <option value="EPAM390">EPAM390</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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79 <option value="EPAM40">EPAM40</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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80 <option value="EPAM400">EPAM400</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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81 <option value="EPAM410">EPAM410</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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82 <option value="EPAM420">EPAM420</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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83 <option value="EPAM430">EPAM430</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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84 <option value="EPAM440">EPAM440</option>
2f0dc62d0a19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss commit 08f38b1f9b4241ba9037c64f732621efc628fd43
iuc
parents:
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85 <option value="EPAM450">EPAM450</option>
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86 <option value="EPAM460">EPAM460</option>
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87 <option value="EPAM470">EPAM470</option>
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88 <option value="EPAM480">EPAM480</option>
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89 <option value="EPAM490">EPAM490</option>
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90 <option value="EPAM50">EPAM50</option>
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91 <option value="EPAM500">EPAM500</option>
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92 <option value="EPAM60">EPAM60</option>
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93 <option value="EPAM70">EPAM70</option>
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94 <option value="EPAM80">EPAM80</option>
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95 <option value="EPAM90">EPAM90</option>
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96 <option value="SSSUB">SSSUB</option>
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97 </param>
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98 </xml>
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99
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100 <xml name="param_brief">
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101 <param argument="-brief" type="select" label="Brief identity and similarity">
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102 <option value="yes">Yes</option>
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103 <option value="no">No</option>
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104 </param>
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105 </xml>
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106
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107 <xml name="gap_penalties">
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108 <param argument="-gapopen" type="float" value="10.0" min="1.0" max="100.0" label="Gap open penalty" />
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109 <param argument="-gapextend" type="float" value="0.5" min="0.0" max="10.0" label="Gap extension penalty" />
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110 </xml>
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111
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112 <xml name="endgap_penalties">
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113 <conditional name="endgap">
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114 <param argument="-endweight" type="select" label="Apply end gap penalties?" help="">
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115 <option value="yes">yes</option>
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116 <option value="no" selected="true">no</option>
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117 </param>
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118 <when value="yes">
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119 <param argument="-endopen" type="float" value="10.0" min="0.0" max="100.0" label="Penalty for creation of and end gap." help="The best value depends on the choice of comparison matrix. The default value assumes you are using the EBLOSUM62 matrix for protein sequences, and the EDNAFULL matrix for nucleotide sequences."/>
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120 <param argument="-endextend" type="float" value="0.5" min="0.0" max="10.0" label="The end gap extensionpenalty" help="this penalty is added to the end gap penalty for each base or residue in the end gap."/>
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121 </when>
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122 <when value="no"/>
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123 </conditional>
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124 </xml>
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125
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126 <xml name="choose_alignment_output_format">
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127 <param name="out_format1" type="select" label="Output alignment file format">
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128 <option value="srspair">SRS pair (p)</option>
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129 <option value="simple">Simple (m)</option>
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130 <option value="fasta">FASTA (m)</option>
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131 <option value="msf">MSF (m)</option>
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132 <option value="srs">SRS (m)</option>
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133 <option value="pair">Pair (p)</option>
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134 <option value="markx0">Markx0 (p)</option>
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135 <option value="markx1">Markx1 (p)</option>
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136 <option value="markx2">Markx2 (p)</option>
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137 <option value="markx3">Markx3 (p)</option>
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138 <option value="markx10">Markx10 (p)</option>
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139 <option value="score">Score (p)</option>
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140 </param>
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141 </xml>
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142
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143 <xml name="change_alignment_output_format">
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144 <change_format>
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145 <when input="out_format1" value="fasta" format="fasta"/>
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146 <when input="out_format1" value="score" format="score"/>
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147 <when input="out_format1" value="pair" format="pair"/>
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148 <when input="out_format1" value="srspair" format="srspair"/>
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149 <when input="out_format1" value="simple" format="simple"/>
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150 <when input="out_format1" value="srs" format="srs"/>
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151 <when input="out_format1" value="msf" format="msf"/>
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152 <when input="out_format1" value="markx0" format="markx0"/>
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153 <when input="out_format1" value="markx1" format="markx1"/>
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154 <when input="out_format1" value="markx2" format="markx2"/>
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155 <when input="out_format1" value="markx3" format="markx3"/>
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156 <when input="out_format1" value="markx10" format="markx10"/>
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157 </change_format>
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158 </xml>
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159 </macros>