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comparison emboss_backtranseq.xml @ 15:dc492eb6a4fc draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss_5 commit 431486be049407b094d495ae4a68bf76d27fa522
author iuc
date Mon, 28 Jan 2019 14:50:36 -0500
parents 8992d258e42f
children
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14:2e0fb4bc860e 15:dc492eb6a4fc
1 <tool id="EMBOSS: backtranseq2" name="backtranseq" version="@VERSION@"> 1 <tool id="EMBOSS: backtranseq2" name="backtranseq" version="6.6.0">
2 <description>Back translate a protein sequence</description> 2 <description>Back translate a protein sequence</description>
3 <macros> 3 <macros>
4 <import>macros.xml</import> 4 <import>macros.xml</import>
5 </macros> 5 </macros>
6 <expand macro="requirements" /> 6 <requirements>
7 <code file="emboss_format_corrector.py" /> 7 <requirement type="package" version="6.6.0">emboss</requirement>
8 <command>backtranseq -sequence '$input1' -outfile '$out_file1' -cfile $cfile -osformat2 $out_format1 -auto</command> 8 </requirements>
9 <inputs> 9 <code file="emboss_format_corrector.py" />
10 <param name="input1" type="data" format="fasta" label="On query" /> 10 <command>backtranseq -sequence '$input1' -outfile '$out_file1' -cfile $cfile -osformat2 $out_format1 -auto</command>
11 <param name="cfile" type="select" label="Codon usage file"> 11 <inputs>
12 <option value="Ehum.cut">Ehum.cut</option> 12 <param name="input1" type="data" format="fasta" label="Protein sequence" help="In FASTA format" />
13 <option value="Eacc.cut">Eacc.cut</option> 13 <param name="cfile" type="select" label="Codon usage file">
14 <option value="Eadenovirus5.cut">Eadenovirus5.cut</option> 14 <option value="Ehum.cut">Ehum.cut</option>
15 <option value="Eadenovirus7.cut">Eadenovirus7.cut</option> 15 <option value="Eacc.cut">Eacc.cut</option>
16 <option value="Eaidlav.cut">Eaidlav.cut</option> 16 <option value="Eadenovirus5.cut">Eadenovirus5.cut</option>
17 <option value="Eanasp.cut">Eanasp.cut</option> 17 <option value="Eadenovirus7.cut">Eadenovirus7.cut</option>
18 <option value="Eani.cut">Eani.cut</option> 18 <option value="Eaidlav.cut">Eaidlav.cut</option>
19 <option value="Eani_h.cut">Eani_h.cut</option> 19 <option value="Eanasp.cut">Eanasp.cut</option>
20 <option value="Eanidmit.cut">Eanidmit.cut</option> 20 <option value="Eani.cut">Eani.cut</option>
21 <option value="Easn.cut">Easn.cut</option> 21 <option value="Eani_h.cut">Eani_h.cut</option>
22 <option value="Eath.cut">Eath.cut</option> 22 <option value="Eanidmit.cut">Eanidmit.cut</option>
23 <option value="Eatu.cut">Eatu.cut</option> 23 <option value="Easn.cut">Easn.cut</option>
24 <option value="Eavi.cut">Eavi.cut</option> 24 <option value="Eath.cut">Eath.cut</option>
25 <option value="Ebja.cut">Ebja.cut</option> 25 <option value="Eatu.cut">Eatu.cut</option>
26 <option value="Ebly.cut">Ebly.cut</option> 26 <option value="Eavi.cut">Eavi.cut</option>
27 <option value="Ebme.cut">Ebme.cut</option> 27 <option value="Ebja.cut">Ebja.cut</option>
28 <option value="Ebmo.cut">Ebmo.cut</option> 28 <option value="Ebly.cut">Ebly.cut</option>
29 <option value="Ebna.cut">Ebna.cut</option> 29 <option value="Ebme.cut">Ebme.cut</option>
30 <option value="Ebov.cut">Ebov.cut</option> 30 <option value="Ebmo.cut">Ebmo.cut</option>
31 <option value="Ebovsp.cut">Ebovsp.cut</option> 31 <option value="Ebna.cut">Ebna.cut</option>
32 <option value="Ebst.cut">Ebst.cut</option> 32 <option value="Ebov.cut">Ebov.cut</option>
33 <option value="Ebsu.cut">Ebsu.cut</option> 33 <option value="Ebovsp.cut">Ebovsp.cut</option>
34 <option value="Ebsu_h.cut">Ebsu_h.cut</option> 34 <option value="Ebst.cut">Ebst.cut</option>
35 <option value="Ecac.cut">Ecac.cut</option> 35 <option value="Ebsu.cut">Ebsu.cut</option>
36 <option value="Ecal.cut">Ecal.cut</option> 36 <option value="Ebsu_h.cut">Ebsu_h.cut</option>
37 <option value="Eccr.cut">Eccr.cut</option> 37 <option value="Ecac.cut">Ecac.cut</option>
38 <option value="Ecel.cut">Ecel.cut</option> 38 <option value="Ecal.cut">Ecal.cut</option>
39 <option value="Echi.cut">Echi.cut</option> 39 <option value="Eccr.cut">Eccr.cut</option>
40 <option value="Echicken.cut">Echicken.cut</option> 40 <option value="Ecel.cut">Ecel.cut</option>
41 <option value="Echisp.cut">Echisp.cut</option> 41 <option value="Echi.cut">Echi.cut</option>
42 <option value="Echk.cut">Echk.cut</option> 42 <option value="Echicken.cut">Echicken.cut</option>
43 <option value="Echmp.cut">Echmp.cut</option> 43 <option value="Echisp.cut">Echisp.cut</option>
44 <option value="Echnt.cut">Echnt.cut</option> 44 <option value="Echk.cut">Echk.cut</option>
45 <option value="Echos.cut">Echos.cut</option> 45 <option value="Echmp.cut">Echmp.cut</option>
46 <option value="Echzm.cut">Echzm.cut</option> 46 <option value="Echnt.cut">Echnt.cut</option>
47 <option value="Echzmrubp.cut">Echzmrubp.cut</option> 47 <option value="Echos.cut">Echos.cut</option>
48 <option value="Ecpx.cut">Ecpx.cut</option> 48 <option value="Echzm.cut">Echzm.cut</option>
49 <option value="Ecre.cut">Ecre.cut</option> 49 <option value="Echzmrubp.cut">Echzmrubp.cut</option>
50 <option value="Ecrisp.cut">Ecrisp.cut</option> 50 <option value="Ecpx.cut">Ecpx.cut</option>
51 <option value="Ectr.cut">Ectr.cut</option> 51 <option value="Ecre.cut">Ecre.cut</option>
52 <option value="Edayhoff.cut">Edayhoff.cut</option> 52 <option value="Ecrisp.cut">Ecrisp.cut</option>
53 <option value="Eddi.cut">Eddi.cut</option> 53 <option value="Ectr.cut">Ectr.cut</option>
54 <option value="Eddi_h.cut">Eddi_h.cut</option> 54 <option value="Edayhoff.cut">Edayhoff.cut</option>
55 <option value="Edog.cut">Edog.cut</option> 55 <option value="Eddi.cut">Eddi.cut</option>
56 <option value="Edro.cut">Edro.cut</option> 56 <option value="Eddi_h.cut">Eddi_h.cut</option>
57 <option value="Edro_h.cut">Edro_h.cut</option> 57 <option value="Edog.cut">Edog.cut</option>
58 <option value="Edrosophila.cut">Edrosophila.cut</option> 58 <option value="Edro.cut">Edro.cut</option>
59 <option value="Eeca.cut">Eeca.cut</option> 59 <option value="Edro_h.cut">Edro_h.cut</option>
60 <option value="Eeco.cut">Eeco.cut</option> 60 <option value="Edrosophila.cut">Edrosophila.cut</option>
61 <option value="Eeco_h.cut">Eeco_h.cut</option> 61 <option value="Eeca.cut">Eeca.cut</option>
62 <option value="Eecoli.cut">Eecoli.cut</option> 62 <option value="Eeco.cut">Eeco.cut</option>
63 <option value="Ef1.cut">Ef1.cut</option> 63 <option value="Eeco_h.cut">Eeco_h.cut</option>
64 <option value="Efish.cut">Efish.cut</option> 64 <option value="Eecoli.cut">Eecoli.cut</option>
65 <option value="Efmdvpolyp.cut">Efmdvpolyp.cut</option> 65 <option value="Ef1.cut">Ef1.cut</option>
66 <option value="Eham.cut">Eham.cut</option> 66 <option value="Efish.cut">Efish.cut</option>
67 <option value="Ehha.cut">Ehha.cut</option> 67 <option value="Efmdvpolyp.cut">Efmdvpolyp.cut</option>
68 <option value="Ehin.cut">Ehin.cut</option> 68 <option value="Eham.cut">Eham.cut</option>
69 <option value="Ehma.cut">Ehma.cut</option> 69 <option value="Ehha.cut">Ehha.cut</option>
70 <option value="Ehuman.cut">Ehuman.cut</option> 70 <option value="Ehin.cut">Ehin.cut</option>
71 <option value="Ekla.cut">Ekla.cut</option> 71 <option value="Ehma.cut">Ehma.cut</option>
72 <option value="Ekpn.cut">Ekpn.cut</option> 72 <option value="Ehuman.cut">Ehuman.cut</option>
73 <option value="Ella.cut">Ella.cut</option> 73 <option value="Ekla.cut">Ekla.cut</option>
74 <option value="Emac.cut">Emac.cut</option> 74 <option value="Ekpn.cut">Ekpn.cut</option>
75 <option value="Emaize.cut">Emaize.cut</option> 75 <option value="Ella.cut">Ella.cut</option>
76 <option value="Emam_h.cut">Emam_h.cut</option> 76 <option value="Emac.cut">Emac.cut</option>
77 <option value="Emixlg.cut">Emixlg.cut</option> 77 <option value="Emaize.cut">Emaize.cut</option>
78 <option value="Emouse.cut">Emouse.cut</option> 78 <option value="Emam_h.cut">Emam_h.cut</option>
79 <option value="Emsa.cut">Emsa.cut</option> 79 <option value="Emixlg.cut">Emixlg.cut</option>
80 <option value="Emse.cut">Emse.cut</option> 80 <option value="Emouse.cut">Emouse.cut</option>
81 <option value="Emta.cut">Emta.cut</option> 81 <option value="Emsa.cut">Emsa.cut</option>
82 <option value="Emtu.cut">Emtu.cut</option> 82 <option value="Emse.cut">Emse.cut</option>
83 <option value="Emus.cut">Emus.cut</option> 83 <option value="Emta.cut">Emta.cut</option>
84 <option value="Emussp.cut">Emussp.cut</option> 84 <option value="Emtu.cut">Emtu.cut</option>
85 <option value="Emva.cut">Emva.cut</option> 85 <option value="Emus.cut">Emus.cut</option>
86 <option value="Emze.cut">Emze.cut</option> 86 <option value="Emussp.cut">Emussp.cut</option>
87 <option value="Emzecp.cut">Emzecp.cut</option> 87 <option value="Emva.cut">Emva.cut</option>
88 <option value="Encr.cut">Encr.cut</option> 88 <option value="Emze.cut">Emze.cut</option>
89 <option value="Eneu.cut">Eneu.cut</option> 89 <option value="Emzecp.cut">Emzecp.cut</option>
90 <option value="Engo.cut">Engo.cut</option> 90 <option value="Encr.cut">Encr.cut</option>
91 <option value="Eoncsp.cut">Eoncsp.cut</option> 91 <option value="Eneu.cut">Eneu.cut</option>
92 <option value="Epae.cut">Epae.cut</option> 92 <option value="Engo.cut">Engo.cut</option>
93 <option value="Epea.cut">Epea.cut</option> 93 <option value="Eoncsp.cut">Eoncsp.cut</option>
94 <option value="Epet.cut">Epet.cut</option> 94 <option value="Epae.cut">Epae.cut</option>
95 <option value="Epfa.cut">Epfa.cut</option> 95 <option value="Epea.cut">Epea.cut</option>
96 <option value="Ephix174.cut">Ephix174.cut</option> 96 <option value="Epet.cut">Epet.cut</option>
97 <option value="Ephv.cut">Ephv.cut</option> 97 <option value="Epfa.cut">Epfa.cut</option>
98 <option value="Ephy.cut">Ephy.cut</option> 98 <option value="Ephix174.cut">Ephix174.cut</option>
99 <option value="Epig.cut">Epig.cut</option> 99 <option value="Ephv.cut">Ephv.cut</option>
100 <option value="Epolyomaa2.cut">Epolyomaa2.cut</option> 100 <option value="Ephy.cut">Ephy.cut</option>
101 <option value="Epombe.cut">Epombe.cut</option> 101 <option value="Epig.cut">Epig.cut</option>
102 <option value="Epombecai.cut">Epombecai.cut</option> 102 <option value="Epolyomaa2.cut">Epolyomaa2.cut</option>
103 <option value="Epot.cut">Epot.cut</option> 103 <option value="Epombe.cut">Epombe.cut</option>
104 <option value="Eppu.cut">Eppu.cut</option> 104 <option value="Epombecai.cut">Epombecai.cut</option>
105 <option value="Epse.cut">Epse.cut</option> 105 <option value="Epot.cut">Epot.cut</option>
106 <option value="Epsy.cut">Epsy.cut</option> 106 <option value="Eppu.cut">Eppu.cut</option>
107 <option value="Epvu.cut">Epvu.cut</option> 107 <option value="Epse.cut">Epse.cut</option>
108 <option value="Erab.cut">Erab.cut</option> 108 <option value="Epsy.cut">Epsy.cut</option>
109 <option value="Erabbit.cut">Erabbit.cut</option> 109 <option value="Epvu.cut">Epvu.cut</option>
110 <option value="Erabsp.cut">Erabsp.cut</option> 110 <option value="Erab.cut">Erab.cut</option>
111 <option value="Erat.cut">Erat.cut</option> 111 <option value="Erabbit.cut">Erabbit.cut</option>
112 <option value="Eratsp.cut">Eratsp.cut</option> 112 <option value="Erabsp.cut">Erabsp.cut</option>
113 <option value="Erca.cut">Erca.cut</option> 113 <option value="Erat.cut">Erat.cut</option>
114 <option value="Erhm.cut">Erhm.cut</option> 114 <option value="Eratsp.cut">Eratsp.cut</option>
115 <option value="Eric.cut">Eric.cut</option> 115 <option value="Erca.cut">Erca.cut</option>
116 <option value="Erle.cut">Erle.cut</option> 116 <option value="Erhm.cut">Erhm.cut</option>
117 <option value="Erme.cut">Erme.cut</option> 117 <option value="Eric.cut">Eric.cut</option>
118 <option value="Ersp.cut">Ersp.cut</option> 118 <option value="Erle.cut">Erle.cut</option>
119 <option value="Esalsp.cut">Esalsp.cut</option> 119 <option value="Erme.cut">Erme.cut</option>
120 <option value="Esau.cut">Esau.cut</option> 120 <option value="Ersp.cut">Ersp.cut</option>
121 <option value="Esco.cut">Esco.cut</option> 121 <option value="Esalsp.cut">Esalsp.cut</option>
122 <option value="Esgi.cut">Esgi.cut</option> 122 <option value="Esau.cut">Esau.cut</option>
123 <option value="Eshp.cut">Eshp.cut</option> 123 <option value="Esco.cut">Esco.cut</option>
124 <option value="Eshpsp.cut">Eshpsp.cut</option> 124 <option value="Esgi.cut">Esgi.cut</option>
125 <option value="Esli.cut">Esli.cut</option> 125 <option value="Eshp.cut">Eshp.cut</option>
126 <option value="Eslm.cut">Eslm.cut</option> 126 <option value="Eshpsp.cut">Eshpsp.cut</option>
127 <option value="Esma.cut">Esma.cut</option> 127 <option value="Esli.cut">Esli.cut</option>
128 <option value="Esmi.cut">Esmi.cut</option> 128 <option value="Eslm.cut">Eslm.cut</option>
129 <option value="Esmu.cut">Esmu.cut</option> 129 <option value="Esma.cut">Esma.cut</option>
130 <option value="Esoy.cut">Esoy.cut</option> 130 <option value="Esmi.cut">Esmi.cut</option>
131 <option value="Espi.cut">Espi.cut</option> 131 <option value="Esmu.cut">Esmu.cut</option>
132 <option value="Espn.cut">Espn.cut</option> 132 <option value="Esoy.cut">Esoy.cut</option>
133 <option value="Espo.cut">Espo.cut</option> 133 <option value="Espi.cut">Espi.cut</option>
134 <option value="Espo_h.cut">Espo_h.cut</option> 134 <option value="Espn.cut">Espn.cut</option>
135 <option value="Espu.cut">Espu.cut</option> 135 <option value="Espo.cut">Espo.cut</option>
136 <option value="Esta.cut">Esta.cut</option> 136 <option value="Espo_h.cut">Espo_h.cut</option>
137 <option value="Esty.cut">Esty.cut</option> 137 <option value="Espu.cut">Espu.cut</option>
138 <option value="Esus.cut">Esus.cut</option> 138 <option value="Esta.cut">Esta.cut</option>
139 <option value="Esv40.cut">Esv40.cut</option> 139 <option value="Esty.cut">Esty.cut</option>
140 <option value="Esyhsp.cut">Esyhsp.cut</option> 140 <option value="Esus.cut">Esus.cut</option>
141 <option value="Esynsp.cut">Esynsp.cut</option> 141 <option value="Esv40.cut">Esv40.cut</option>
142 <option value="Etbr.cut">Etbr.cut</option> 142 <option value="Esyhsp.cut">Esyhsp.cut</option>
143 <option value="Etcr.cut">Etcr.cut</option> 143 <option value="Esynsp.cut">Esynsp.cut</option>
144 <option value="Eter.cut">Eter.cut</option> 144 <option value="Etbr.cut">Etbr.cut</option>
145 <option value="Etetsp.cut">Etetsp.cut</option> 145 <option value="Etcr.cut">Etcr.cut</option>
146 <option value="Etob.cut">Etob.cut</option> 146 <option value="Eter.cut">Eter.cut</option>
147 <option value="Etobcp.cut">Etobcp.cut</option> 147 <option value="Etetsp.cut">Etetsp.cut</option>
148 <option value="Etom.cut">Etom.cut</option> 148 <option value="Etob.cut">Etob.cut</option>
149 <option value="Etrb.cut">Etrb.cut</option> 149 <option value="Etobcp.cut">Etobcp.cut</option>
150 <option value="Evco.cut">Evco.cut</option> 150 <option value="Etom.cut">Etom.cut</option>
151 <option value="Ewht.cut">Ewht.cut</option> 151 <option value="Etrb.cut">Etrb.cut</option>
152 <option value="Exel.cut">Exel.cut</option> 152 <option value="Evco.cut">Evco.cut</option>
153 <option value="Exenopus.cut">Exenopus.cut</option> 153 <option value="Ewht.cut">Ewht.cut</option>
154 <option value="Eyeast.cut">Eyeast.cut</option> 154 <option value="Exel.cut">Exel.cut</option>
155 <option value="Eyeastcai.cut">Eyeastcai.cut</option> 155 <option value="Exenopus.cut">Exenopus.cut</option>
156 <option value="Eyen.cut">Eyen.cut</option> 156 <option value="Eyeast.cut">Eyeast.cut</option>
157 <option value="Eysc.cut">Eysc.cut</option> 157 <option value="Eyeastcai.cut">Eyeastcai.cut</option>
158 <option value="Eysc_h.cut">Eysc_h.cut</option> 158 <option value="Eyen.cut">Eyen.cut</option>
159 <option value="Eyscmt.cut">Eyscmt.cut</option> 159 <option value="Eysc.cut">Eysc.cut</option>
160 <option value="Eysp.cut">Eysp.cut</option> 160 <option value="Eysc_h.cut">Eysc_h.cut</option>
161 <option value="Ezebrafish.cut">Ezebrafish.cut</option> 161 <option value="Eyscmt.cut">Eyscmt.cut</option>
162 <option value="Ezma.cut">Ezma.cut</option> 162 <option value="Eysp.cut">Eysp.cut</option>
163 </param> 163 <option value="Ezebrafish.cut">Ezebrafish.cut</option>
164 <param name="out_format1" type="select" label="Output sequence file format"> 164 <option value="Ezma.cut">Ezma.cut</option>
165 <option value="fasta">FASTA (m)</option> 165 </param>
166 <option value="acedb">ACeDB (m)</option> 166 <param name="out_format1" type="select" label="Output sequence file format">
167 <option value="asn1">ASN.1 (m)</option> 167 <option value="fasta">FASTA (m)</option>
168 <option value="clustal">Clustal (m)</option> 168 <option value="acedb">ACeDB (m)</option>
169 <option value="codata">CODATA (m)</option> 169 <option value="asn1">ASN.1 (m)</option>
170 <option value="embl">EMBL (m)</option> 170 <option value="clustal">Clustal (m)</option>
171 <option value="fitch">Fitch (m)</option> 171 <option value="codata">CODATA (m)</option>
172 <option value="gcg">Wisconsin Package GCG 9.x and 10.x (s)</option> 172 <option value="embl">EMBL (m)</option>
173 <option value="genbank">GENBANK (m)</option> 173 <option value="fitch">Fitch (m)</option>
174 <option value="gff">GFF (m)</option> 174 <option value="gcg">Wisconsin Package GCG 9.x and 10.x (s)</option>
175 <option value="hennig86">Hennig86 (m)</option> 175 <option value="genbank">GENBANK (m)</option>
176 <option value="ig">Intelligenetics (m)</option> 176 <option value="gff">GFF (m)</option>
177 <option value="jackknifer">Jackknifer (m)</option> 177 <option value="hennig86">Hennig86 (m)</option>
178 <option value="jackknifernon">Jackknifernon (m)</option> 178 <option value="ig">Intelligenetics (m)</option>
179 <option value="mega">Mega (m)</option> 179 <option value="jackknifer">Jackknifer (m)</option>
180 <option value="meganon">Meganon (m)</option> 180 <option value="jackknifernon">Jackknifernon (m)</option>
181 <option value="msf">Wisconsin Package GCG's MSF (m)</option> 181 <option value="mega">Mega (m)</option>
182 <option value="pir">NBRF (PIR) (m)</option> 182 <option value="meganon">Meganon (m)</option>
183 <option value="ncbi">NCBI style FASTA (m)</option> 183 <option value="msf">Wisconsin Package GCG's MSF (m)</option>
184 <option value="nexus">Nexus/PAUP (m)</option> 184 <option value="pir">NBRF (PIR) (m)</option>
185 <option value="nexusnon">Nexusnon/PAUPnon (m)</option> 185 <option value="ncbi">NCBI style FASTA (m)</option>
186 <option value="phylip">PHYLIP interleaved (m)</option> 186 <option value="nexus">Nexus/PAUP (m)</option>
187 <option value="phylipnon">PHYLIP non-interleaved (m)</option> 187 <option value="nexusnon">Nexusnon/PAUPnon (m)</option>
188 <option value="selex">SELEX (m)</option> 188 <option value="phylip">PHYLIP interleaved (m)</option>
189 <option value="staden">Staden (s)</option> 189 <option value="phylipnon">PHYLIP non-interleaved (m)</option>
190 <option value="strider">DNA strider (m)</option> 190 <option value="selex">SELEX (m)</option>
191 <option value="swiss">SwisProt entry (m)</option> 191 <option value="staden">Staden (s)</option>
192 <option value="text">Plain sequence (s)</option> 192 <option value="strider">DNA strider (m)</option>
193 <option value="treecon">Treecon (m)</option> 193 <option value="swiss">SwisProt entry (m)</option>
194 </param> 194 <option value="text">Plain sequence (s)</option>
195 </inputs> 195 <option value="treecon">Treecon (m)</option>
196 <outputs> 196 </param>
197 <data name="out_file1" format="txt" /> 197 </inputs>
198 </outputs> 198 <outputs>
199 <tests> 199 <data name="out_file1" format="txt" />
200 <test> 200 </outputs>
201 <param name="input1" value="2.fasta"/> 201 <tests>
202 <param name="cfile" value="Ehum.cut"/> 202 <test>
203 <param name="out_format1" value="fasta"/> 203 <param name="input1" value="emboss_transeq_out.fasta"/>
204 <output name="out_file1" file="emboss_backtranseq_out.fasta"/> 204 <param name="cfile" value="Ehum.cut"/>
205 </test> 205 <param name="out_format1" value="fasta"/>
206 </tests> 206 <output name="out_file1" file="emboss_backtranseq_out.fasta" ftype="fasta" />
207 <help> 207 </test>
208 <!-- Test with multiple sequence FASTA input -->
209 <test>
210 <param name="input1" value="emboss_getorf_out.fasta" />
211 <param name="cfile" value="Ehum.cut"/>
212 <param name="out_format1" value="fasta"/>
213 <output name="out_file1" file="emboss_backtranseq_out2.fasta" ftype="fasta" />
214 </test>
215 </tests>
216 <help>
208 .. class:: warningmark 217 .. class:: warningmark
209 218
210 The input dataset needs to be sequences. 219 Back-translate a protein sequence to the nucleic acid sequence it is most likely to have come from. ``backtranseq`` uses a codon usage table which gives the frequency of usage of each codon for each amino acid. For each amino acid in the input sequence, the corresponding most frequently occuring codon is used in the nucleic acid sequence that is output.
211 220
212 ----- 221 -----
213 222
214 You can view the original documentation here_. 223 You can view the original documentation here_.
215 224
216 .. _here: http://galaxy-iuc.github.io/emboss-5.0-docs/backtranseq.html 225 .. _here: http://emboss.open-bio.org/rel/rel6/apps/backtranseq.html
217 </help> 226 </help>
218 <expand macro="citations" /> 227 <expand macro="citations" />
219 </tool> 228 </tool>