1 /**
2 * UGENE - Integrated Bioinformatics Tools.
3 * Copyright (C) 2008-2021 UniPro <ugene@unipro.ru>
4 * http://ugene.net
5 *
6 * This program is free software; you can redistribute it and/or
7 * modify it under the terms of the GNU General Public License
8 * as published by the Free Software Foundation; either version 2
9 * of the License, or (at your option) any later version.
10 *
11 * This program is distributed in the hope that it will be useful,
12 * but WITHOUT ANY WARRANTY; without even the implied warranty of
13 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
14 * GNU General Public License for more details.
15 *
16 * You should have received a copy of the GNU General Public License
17 * along with this program; if not, write to the Free Software
18 * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston,
19 * MA 02110-1301, USA.
20 */
21
22 #include "WriteSequenceValidator.h"
23
24 #include <U2Core/AppContext.h>
25 #include <U2Core/DocumentModel.h>
26 #include <U2Core/U2SafePoints.h>
27
28 #include <U2Lang/BaseAttributes.h>
29 #include <U2Lang/BaseSlots.h>
30 #include <U2Lang/SupportClass.h>
31
32 namespace U2 {
33 namespace Workflow {
34
WriteSequenceValidator(const QString & attr,const QString & port,const QString & slot)35 WriteSequenceValidator::WriteSequenceValidator(const QString &attr, const QString &port, const QString &slot)
36 : ScreenedParamValidator(attr, port, slot) {
37 }
38
validate(const Configuration * cfg,NotificationsList & notificationList) const39 bool WriteSequenceValidator::validate(const Configuration *cfg, NotificationsList ¬ificationList) const {
40 const Actor *actor = dynamic_cast<const Actor *>(cfg);
41 SAFE_POINT(nullptr != actor, "NULL actor", false);
42 if (!isAnnotationsBinded(actor)) {
43 return true;
44 }
45
46 DocumentFormat *format = getFormatSafe(actor);
47 CHECK(nullptr != format, true);
48 if (!isAnnotationsSupported(format)) {
49 QString warning = QObject::tr("The format %1 does not support annotations").arg(format->getFormatId().toUpper());
50 notificationList << WorkflowNotification(warning, "", WorkflowNotification::U2_WARNING);
51 cmdLog.trace(warning);
52 }
53
54 return true;
55 }
56
getFormatSafe(const Actor * actor)57 DocumentFormat *WriteSequenceValidator::getFormatSafe(const Actor *actor) {
58 Attribute *attr = actor->getParameter(BaseAttributes::DOCUMENT_FORMAT_ATTRIBUTE().getId());
59 SAFE_POINT(nullptr != attr, "NULL format attribute", nullptr);
60 CHECK(actor->isAttributeVisible(attr), nullptr);
61 QString formatId = attr->getAttributePureValue().toString();
62 return AppContext::getDocumentFormatRegistry()->getFormatById(formatId);
63 }
64
isAnnotationsBinded(const Actor * actor) const65 bool WriteSequenceValidator::isAnnotationsBinded(const Actor *actor) const {
66 Port *p = actor->getPort(port);
67 SAFE_POINT(nullptr != p, "NULL port", false);
68 Attribute *attr = p->getParameter(IntegralBusPort::BUS_MAP_ATTR_ID);
69 SAFE_POINT(nullptr != attr, "NULL busmap attribute", false);
70 StrStrMap busMap = attr->getAttributeValueWithoutScript<StrStrMap>();
71 QString bindData = busMap.value(BaseSlots::ANNOTATION_TABLE_SLOT().getId(), "");
72 return !bindData.isEmpty();
73 }
74
isAnnotationsSupported(const DocumentFormat * format)75 bool WriteSequenceValidator::isAnnotationsSupported(const DocumentFormat *format) {
76 return format->getSupportedObjectTypes().contains(GObjectTypes::ANNOTATION_TABLE);
77 }
78
validate(const IntegralBusPort * port,NotificationsList & notificationList) const79 bool WriteSequencePortValidator::validate(const IntegralBusPort *port, NotificationsList ¬ificationList) const {
80 bool result = true;
81 Actor *actor = port->owner();
82
83 QStringList screenedSlots(BaseSlots::URL_SLOT().getId());
84
85 if (!isBinded(port, BaseSlots::ANNOTATION_TABLE_SLOT().getId())) {
86 DocumentFormat *format = WriteSequenceValidator::getFormatSafe(actor);
87 CHECK(nullptr != format, result);
88 if (!WriteSequenceValidator::isAnnotationsSupported(format)) {
89 screenedSlots << BaseSlots::ANNOTATION_TABLE_SLOT().getId();
90 }
91 }
92 result &= ScreenedSlotValidator::validate(screenedSlots, port, notificationList);
93 return result;
94 }
95
96 } // namespace Workflow
97 } // namespace U2
98