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- TPP:V5Feedback (11460 bytes)
22: ... When you have install over TPP 4.8, it sets the default tpp data directory to the old directory under Ine...
23: ** ''Joe: changed priority of default TPP_DATA environment variable, if that doesn't ex...
36: ...lot.exe results in "Fontconfig error: Cannot load default config file"
122: ...ne that actually supplies a favico. Otherwise it defaults to what the browser provides. On regis its that... - Developer: Boost CPP libraries (1820 bytes)
19: By default, installation is C:\Boost\include and C:\Boost\li... - Software:Prequips:Inclusion List Builder (3897 bytes)
36: ...ater. Most machines should have this installed by default. Should your machine not have a recent JRE instal... - TPP:Developer Documentation (23931 bytes)
46: ...iguration section below. Apache support is the default configuration and is installed and configured on ...
109: ...installed in the following directory structure by default:
266: ;-Eenzyme : set sample enzyme (default is trypsin, possible values are: nonspecific, chy...
319: ;-m<num> : change XPRESS mass tolerance (default=1.0)
320: ;-l<str> : change labeled residues (default='C') - TPP:Windows Cygwin Installation (7499 bytes)
9: ...ot conflict with an existing instance of IIS (the default Windows webserver).
15: # Follow default installation by clicking "Next" at each installat...
22: ... WILL NOT work!<br/>Keep the other options set to default "RECOMMENDED" settings.
23: ...llation files. If unsure the "Desktop" is a good default.
26: Image:Cygsetup6.jpg|6. All default installation packages should be installed<br/>alo... - TPP:Directory Layout (1000 bytes)
34: ==Cygwin default installation== - TPP:Frequently Asked Questions (5647 bytes)
36: You should be able to use the default username password combination of username "guest"...
40: ...iations from the mean of the FALSE distibution ''(default is 0)'' - TPP:7.0.0 Release Notes (6764 bytes)
24: ...ied prior to the ion mobility array or AFTER it), default behavior of the RAMP interface was changed to rea...
36: * change default minimum probability for analysis to 0, to allow t...
47: ...bability, 0 retains old behavior and is still the default ... for now .
48: ...tor applied to the initial peptide probabilities (default: 0.999)
94: * enable default mapping of fragments to Seq2MS generated spectra - TPP:Installing on Mac OSX (12870 bytes)
91: # documents. By default, all requests are taken from this directory, but
175: Only if necessary! Installed by default on modern fink installs. You can verify that it ... - Software:ProteinProphet (6941 bytes)
17: ... MINPROB: pepeptideProphet probabilty threshold (default=0.05)
18: ...eight in the Protein Group against the threshold (default: check peptide's actual weight against threshold)
56: ...d to a group by even one peptide will be grouped. Default value is zero. Recommended values are 0.2 or 0.3. - TPP 7.0.0: Installing on Ubuntu 22.04 LTS (11579 bytes)
18: ...tory <code>/data</code>. If you want to make your default data location elsewhere, change accordingly
46: ...recipe, we install in /usr/local/tpp and make the default data location /data. You may wish to install in a...
69: ...ion other than the default URL. You can leave the default HTTP port of the TPP GUI as 10401 unless you real...
112: ...e than one version of Perl installed (e.g. system default, and then also your own), you should check carefu... - TPP:Using Petunia (4157 bytes)
55: ...''' page asking for a user name and password. The default login authentication: '''Username:''' ''guest'', ... - TPP:Installing on Ubuntu 7.04 (9446 bytes)
82: ...t as <code>httpd.conf.tpp</code>. Then backup the default apache2 <code>httpd.conf</code>
181: # Default MIME type the server will use for documents if it...
183: DefaultType text/plain - Software:Mascot2XML (2806 bytes)
21: -html : generate html output (default output is pepXML)
25: ...rtid : use short protein id as per Mascot result (default uses full protein ids in fasta file) - TPP:X!Tandem and the TPP (5454 bytes)
36: ==X!Tandem default modifications==
37: Tandem applies default variable modifications to every search: - Software:SpectraST (70083 bytes)
225: ...ied with the option <code>-cP<prob></code>, which defaults to 0.9. This will not coalesce replicates of the...
230: ...vailable to fine-tune the algorithm; however, the default parameters are usually adequate.
235: ...tra through SpectraST's quality filters. With the default settings, spectra failing either or both of the f...
251: ...ile are provided below (these are essentially the defaults):
323: ...ining these modifications are to be processed. By default, SpectraST expects the file to be named <code>spe... - TPP Tutorial v1 (43187 bytes)
157: ...etween SEQUEST, Mascot, Tandem or SpectraST. The default is SEQUEST which is what will start with in this ...
214: ...When the Pep3D parameters page appears, leave the default parameters and select the 'Generate Pep3D image' ... - Export questions discussion list (2232 bytes)
37: ...f for our lists? Peptide Atlas builds use 0.9 by default, which is the criteria that I plan to apply - TPP:Installing on Ubuntu 8.10 (3812 bytes)
51: ...on intrepid. To remove errors/warnings, I changed default g++ version to g++ 4.2. - TPP Tandem search (19915 bytes)
75: ...etween SEQUEST, Mascot, Tandem or SpectraST. The default is SEQUEST. '''Click and change this to Tandem.''...
104: ...arding the _DEFAULT_INPUT_LOCATION_ string in the default tandem_params.xml (c:\Inetpub\wwwroot\ISB\data\pa...
111: ... following lines are to be '''deleted''' from the default '''tandem_params.xml''' as these will be inserted...
116: ...="input" label="list path, taxonomy information">_DEFAULT_INPUT_LOCATION_/taxonomy.xml</note><br>
122: The following lines are '''modified''' from the default '''tandem_params.xml''':<br>
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