{"id":307,"date":"2017-11-09T14:23:23","date_gmt":"2017-11-09T19:23:23","guid":{"rendered":"https:\/\/health.uconn.edu\/connjur\/?page_id=307"},"modified":"2018-01-26T14:17:30","modified_gmt":"2018-01-26T19:17:30","slug":"spectrum-translator","status":"publish","type":"page","link":"https:\/\/health.uconn.edu\/connjur\/documentation\/spectrum-translator\/","title":{"rendered":"Spectrum Translator"},"content":{"rendered":"<div id=\"pl-307\"  class=\"panel-layout\" ><div id=\"pg-307-0\"  class=\"panel-grid panel-no-style\" ><div id=\"pgc-307-0-0\"  class=\"panel-grid-cell\" ><div id=\"panel-307-0-0-0\" class=\"so-panel widget widget_black-studio-tinymce widget_black_studio_tinymce panel-first-child panel-last-child\" data-index=\"0\" ><div class=\"textwidget\"><p><a href=\"https:\/\/health.uconn.edu\/connjur\/documentation\/spectrum-translator\/spectrum-translator-assumptions\/\">Spectrum Translator Assumptions<\/a><\/p>\n<p><a href=\"https:\/\/health.uconn.edu\/connjur\/documentation\/spectrum-translator\/spectrum-translator-configuration\/\">Spectrum Translator Configuration<\/a><\/p>\n<h2>Spectrum Translator Quickstart\u00a0<\/h2>\n<h3>Introduction<\/h3>\n<p>The Connjur Spectrum Translator (ST) can be run from the command line with a minimum of four arguments. For example, to convert from a Varian spectrum in the directory\u00a0<tt>nhsqc5<\/tt>\u00a0to a NMRPipe formatted file named\u00a0<tt>nhsqc.pip<\/tt>, utilize the following command:<\/p>\n<div class=\"code\"><tt>ConnjurST --srctype varian --srcdir nhsqc5 --desttype nmrpipe --destfile nhsqc.pip<\/tt><\/div>\n<h3>Basic arguments<\/h3>\n<p>The basic arguments are:<\/p>\n<ul>\n<li>Source type (<tt>--srctype<\/tt>\u00a0or\u00a0<tt>-st<\/tt>): the source format of the data to be converted. Options include\u00a0<tt>bruker, nmrpipe, rowland<\/tt>\u00a0or\u00a0<tt>varian<\/tt>.<\/li>\n<li>Source directory (<tt>--srcdir<\/tt>\u00a0or\u00a0<tt>-sd<\/tt>): the source of the data. Directories are specified for the Varian and Bruker data formats.<\/li>\n<li>Source file (<tt>--srcfile<\/tt>\u00a0or\u00a0<tt>-sf<\/tt>): the source of the data. Files are specified for the NMRPipe and Rowland Toolkit data formats<\/li>\n<li>Destination type (<tt>--desttype<\/tt>\u00a0or\u00a0<tt>-dt<\/tt>): the destination format of the data to be converted. Options include\u00a0<tt>bruker, nmrpipe, rowland, tabular<\/tt>\u00a0or\u00a0<tt>varian<\/tt>.<\/li>\n<li>Destination directory (<tt>--destdir<\/tt>\u00a0or\u00a0<tt>-dd<\/tt>): the destination of the data. Directories are specified for the Varian and Bruker data formats.<\/li>\n<li>Destination file (<tt>--destfile<\/tt>\u00a0or\u00a0<tt>-df<\/tt>): the destination of the data. Files are specified for the NMRPipe, Rowland Toolkit and tabular data formats<\/li>\n<li>Schedule file (<tt>--schedulein<\/tt>\u00a0or\u00a0<tt>-scd<\/tt>): schedule file name. Implies non-uniform sample.<\/li>\n<\/ul>\n<h3>Additional Examples<\/h3>\n<p>Converting from Rowland Toolkit to Bruker, use the shorter form of the arguments<\/p>\n<p><tt>ConnjurST -st rowland -sf myprotein.sec -dt bruker -dd prot_bruker<br \/><\/tt><tt><br \/><\/tt>The arguments may be given in any order.<\/p>\n<p><tt>ConnjurST -st rowland -dt bruker -sf myprotein.sec -dd prot_bruker<\/tt><\/p>\n<p>is the same command as above.<\/p>\n<\/div><\/div><\/div><\/div><\/div>","protected":false},"excerpt":{"rendered":"<p>Spectrum Translator AssumptionsSpectrum Translator ConfigurationSpectrum Translator Quickstart\u00a0IntroductionThe Connjur Spectrum Translator (ST) can be run from the command line with a minimum of four arguments. For example, to convert from a Varian spectrum in the directory\u00a0nhsqc5\u00a0to a NMRPipe formatted file named\u00a0nhsqc.pip, utilize the following command:ConnjurST &#8211;srctype varian &#8211;srcdir nhsqc5 &#8211;desttype nmrpipe &#8211;destfile nhsqc.pipBasic argumentsThe basic arguments [&hellip;]<\/p>\n","protected":false},"author":38,"featured_media":0,"parent":584,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"_acf_changed":false,"footnotes":""},"acf":[],"publishpress_future_action":{"enabled":false,"date":"2026-04-12 09:29:58","action":"change-status","newStatus":"draft","terms":[],"taxonomy":""},"_links":{"self":[{"href":"https:\/\/health.uconn.edu\/connjur\/wp-json\/wp\/v2\/pages\/307"}],"collection":[{"href":"https:\/\/health.uconn.edu\/connjur\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/health.uconn.edu\/connjur\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/health.uconn.edu\/connjur\/wp-json\/wp\/v2\/users\/38"}],"replies":[{"embeddable":true,"href":"https:\/\/health.uconn.edu\/connjur\/wp-json\/wp\/v2\/comments?post=307"}],"version-history":[{"count":15,"href":"https:\/\/health.uconn.edu\/connjur\/wp-json\/wp\/v2\/pages\/307\/revisions"}],"predecessor-version":[{"id":601,"href":"https:\/\/health.uconn.edu\/connjur\/wp-json\/wp\/v2\/pages\/307\/revisions\/601"}],"up":[{"embeddable":true,"href":"https:\/\/health.uconn.edu\/connjur\/wp-json\/wp\/v2\/pages\/584"}],"wp:attachment":[{"href":"https:\/\/health.uconn.edu\/connjur\/wp-json\/wp\/v2\/media?parent=307"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}