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1 /******************************************************************************
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2 ** @source gseqinfo
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3 **
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4 ** Prints out basic nucleotide sequence statistics
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5 **
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6 ** @author Copyright (C) 2012 Hidetoshi Itaya
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7 ** @version 1.0.3
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8 ** @modified 2012/1/20 Hidetoshi Itaya Created!
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9 ** @modified 2013/6/16 Revision 1
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10 ** @modified 2015/2/7 RESTify
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11 ** @modified 2015/2/7 Refactor
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12 ** @@
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13 **
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14 ** This program is free software; you can redistribute it and/or
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15 ** modify it under the terms of the GNU General Public License
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16 ** as published by the Free Software Foundation; either version 2
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17 ** of the License, or (at your option) any later version.
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18 **
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19 ** This program is distributed in the hope that it will be useful,
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20 ** but WITHOUT ANY WARRANTY; without even the implied warranty of
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21 ** MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
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22 ** GNU General Public License for more details.
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23 **
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24 ** You should have received a copy of the GNU General Public License
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25 ** along with this program; if not, write to the Free Software
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26 ** Foundation, Inc., 59 Temple Place - Suite 330, Boston, MA 02111-1307, USA.
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27 ******************************************************************************/
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28
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29 #include "emboss.h"
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30 #include "glibs.h"
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31
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32
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33
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34
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35 /* @prog gseqinfo *************************************************************
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36 **
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37 ** Prints out basic nucleotide sequence statistics
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38 **
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39 ******************************************************************************/
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40
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41 int main(int argc, char *argv[])
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42 {
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43 embInitPV("gseqinfo", argc, argv, "GEMBASSY", "1.0.3");
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44
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45 AjPSeqall seqall;
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46 AjPSeq seq;
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47 AjPStr inseq = NULL;
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48
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49 AjPStr ori = NULL;
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50 AjPStr ter = NULL;
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51
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52 AjPStr restid = NULL;
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53 AjPStr seqid = NULL;
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54
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55 AjPStr base = NULL;
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56 AjPStr url = NULL;
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57
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58 AjPStr tmpname = NULL;
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59 AjPSeqout tmpout = NULL;
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60
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61 AjPFile outf = NULL;
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62
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63 seqall = ajAcdGetSeqall("sequence");
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64 outf = ajAcdGetOutfile("outfile");
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65
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66 base = ajStrNewC("rest.g-language.org");
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67
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68 gAssignUniqueName(&tmpname);
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69 ajStrAppendC(&tmpname, ".fasta");
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70
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71 while(ajSeqallNext(seqall, &seq))
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72 {
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73 tmpout = ajSeqoutNew();
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74
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75 if(!ajSeqoutOpenFilename(tmpout, tmpname))
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76 {
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77 embExitBad();
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78 }
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79
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80 ajSeqoutSetFormatS(tmpout,ajStrNewC("fasta"));
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81 ajSeqoutWriteSeq(tmpout, seq);
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82 ajSeqoutClose(tmpout);
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83 ajSeqoutDel(&tmpout);
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84
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85 ajFmtPrintS(&url, "http://%S/upload/upl.pl", base);
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86 gFilePostSS(url, tmpname, &restid);
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87 ajStrDel(&url);
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88 ajSysFileUnlinkS(tmpname);
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89
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90 ajStrAssignS(&seqid, ajSeqGetAccS(seq));
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91
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92 if(ajStrGetLen(seqid) == 0)
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93 {
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94 ajStrAssignS(&seqid, ajSeqGetNameS(seq));
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95 }
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96
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97 if(ajStrGetLen(seqid) == 0)
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98 {
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99 ajWarn("No valid header information\n");
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100 }
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101
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102 url = ajStrNew();
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103
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104 ajFmtPrintS(&url, "http://%S/%S/seqinfo/", base, restid);
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105
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106 ajFmtPrintF(outf, "Sequence: %S\n", seqid);
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107 if(!gFileOutURLS(url, &outf))
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108 {
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109 ajDie("Failed to download result from:\n%S\n", url);
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110 }
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111
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112 ajStrDel(&url);
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113 ajStrDel(&restid);
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114 ajStrDel(&seqid);
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115 ajStrDel(&inseq);
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116 }
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117
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118 ajFileClose(&outf);
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119
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120 ajSeqallDel(&seqall);
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121 ajSeqDel(&seq);
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122 ajStrDel(&base);
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123
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124 embExit();
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125
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126 return 0;
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127 }
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