root/galaxy-central/lib/galaxy/webapps/reports/controllers/system.py

リビジョン 2, 10.1 KB (コミッタ: hatakeyama, 15 年 前)

import galaxy-central
行番号 
1import operator, os
2from datetime import datetime, timedelta
3from galaxy.web.base.controller import *
4from galaxy import model
5from galaxy.model.orm import *
6import logging
7log = logging.getLogger( __name__ )
8
9class System( BaseController ):
10    @web.expose
11    def index( self, trans, **kwd ):
12        params = util.Params( kwd )
13        message = ''
14        if params.userless_histories_days:
15            userless_histories_days = params.userless_histories_days
16        else:
17            userless_histories_days = '60'
18        if params.deleted_histories_days:
19            deleted_histories_days = params.deleted_histories_days
20        else:
21            deleted_histories_days = '60'
22        if params.deleted_datasets_days:
23            deleted_datasets_days = params.deleted_datasets_days
24        else:
25            deleted_datasets_days = '60'
26        file_path, disk_usage, datasets, file_size_str = self.disk_usage( trans, **kwd )
27        if 'action' in kwd:
28            if kwd['action'] == "userless_histories":
29                userless_histories_days, message = self.userless_histories( trans, **kwd )
30            elif kwd['action'] == "deleted_histories":
31                deleted_histories_days, message = self.deleted_histories( trans, **kwd )
32            elif kwd['action'] == "deleted_datasets":
33                deleted_datasets_days, message = self.deleted_datasets( trans, **kwd )
34        return trans.fill_template( '/webapps/reports/system.mako',
35                                    file_path=file_path,
36                                    disk_usage=disk_usage,
37                                    datasets=datasets,
38                                    file_size_str=file_size_str,
39                                    userless_histories_days=userless_histories_days,
40                                    deleted_histories_days=deleted_histories_days,
41                                    deleted_datasets_days=deleted_datasets_days,
42                                    message=message )
43    def userless_histories( self, trans, **kwd ):
44        """The number of userless histories and associated datasets that have not been updated for the specified number of days."""
45        params = util.Params( kwd )
46        message = ''
47        if params.userless_histories_days:
48            userless_histories_days = int( params.userless_histories_days )
49            cutoff_time = datetime.utcnow() - timedelta( days=userless_histories_days )
50            history_count = 0
51            dataset_count = 0
52            for history in trans.sa_session.query( model.History ) \
53                                           .filter( and_( model.History.table.c.user_id == None,
54                                                          model.History.table.c.deleted == True,
55                                                          model.History.table.c.update_time < cutoff_time ) ):
56                for dataset in history.datasets:
57                    if not dataset.deleted:
58                        dataset_count += 1
59                history_count += 1
60            message = "%d userless histories ( including a total of %d datasets ) have not been updated for at least %d days." %( history_count, dataset_count, userless_histories_days )
61        else:
62            message = "Enter the number of days."
63        return str( userless_histories_days ), message
64    def deleted_histories( self, trans, **kwd ):
65        """
66        The number of histories that were deleted more than the specified number of days ago, but have not yet been purged.
67        Also included is the number of datasets associated with the histories.
68        """
69        params = util.Params( kwd )
70        message = ''
71        if params.deleted_histories_days:
72            deleted_histories_days = int( params.deleted_histories_days )
73            cutoff_time = datetime.utcnow() - timedelta( days=deleted_histories_days )
74            history_count = 0
75            dataset_count = 0
76            disk_space = 0
77            histories = trans.sa_session.query( model.History ) \
78                                        .filter( and_( model.History.table.c.deleted == True,
79                                                       model.History.table.c.purged == False,
80                                                       model.History.table.c.update_time < cutoff_time ) ) \
81                                        .options( eagerload( 'datasets' ) )
82
83            for history in histories:
84                for hda in history.datasets:
85                    if not hda.dataset.purged:
86                        dataset_count += 1
87                        try:
88                            disk_space += hda.dataset.file_size
89                        except:
90                            pass
91                history_count += 1
92            message = "%d histories ( including a total of %d datasets ) were deleted more than %d days ago, but have not yet been purged.  Disk space: " %( history_count, dataset_count, deleted_histories_days ) + str( disk_space )
93        else:
94            message = "Enter the number of days."
95        return str( deleted_histories_days ), message
96    def deleted_datasets( self, trans, **kwd ):
97        """The number of datasets that were deleted more than the specified number of days ago, but have not yet been purged."""
98        params = util.Params( kwd )
99        message = ''
100        if params.deleted_datasets_days:
101            deleted_datasets_days = int( params.deleted_datasets_days )
102            cutoff_time = datetime.utcnow() - timedelta( days=deleted_datasets_days )
103            dataset_count = 0
104            disk_space = 0
105            for dataset in trans.sa_session.query( model.Dataset ) \
106                                           .filter( and_( model.Dataset.table.c.deleted == True,
107                                                          model.Dataset.table.c.purged == False,
108                                                          model.Dataset.table.c.update_time < cutoff_time ) ):
109                dataset_count += 1
110                try:
111                    disk_space += dataset.file_size
112                except:
113                    pass
114            message = str( dataset_count ) + " datasets were deleted more than " + str( deleted_datasets_days ) + \
115            " days ago, but have not yet been purged, disk space: " + str( disk_space ) + "."
116        else:
117            message = "Enter the number of days."
118        return str( deleted_datasets_days ), message
119    @web.expose
120    def dataset_info( self, trans, **kwd ):
121        params = util.Params( kwd )
122        message = ''
123        dataset = trans.sa_session.query( model.Dataset ).get( trans.security.decode_id( kwd.get( 'id', '' ) ) )
124        # Get all associated hdas and lddas that use the same disk file.
125        associated_hdas = trans.sa_session.query( trans.model.HistoryDatasetAssociation ) \
126                                          .filter( and_( trans.model.HistoryDatasetAssociation.deleted == False,
127                                                         trans.model.HistoryDatasetAssociation.dataset_id == dataset.id ) ) \
128                                          .all()
129        associated_lddas = trans.sa_session.query( trans.model.LibraryDatasetDatasetAssociation ) \
130                                           .filter( and_( trans.model.LibraryDatasetDatasetAssociation.deleted == False,
131                                                          trans.model.LibraryDatasetDatasetAssociation.dataset_id == dataset.id ) ) \
132                                           .all()
133        return trans.fill_template( '/webapps/reports/dataset_info.mako',
134                                    dataset=dataset,
135                                    associated_hdas=associated_hdas,
136                                    associated_lddas=associated_lddas,
137                                    message=message )
138    def get_disk_usage( self, file_path ):
139        df_cmd = 'df -h ' + file_path
140        is_sym_link = os.path.islink( file_path )
141        file_system = disk_size = disk_used = disk_avail = disk_cap_pct = mount = None
142        df_file = os.popen( df_cmd )
143        while True:
144            df_line = df_file.readline()
145            df_line = df_line.strip()
146            if df_line:
147                df_line = df_line.lower()
148                if 'filesystem' in df_line or 'proc' in df_line:
149                    continue
150                elif is_sym_link:
151                    if ':' in df_line and '/' in df_line:
152                        mount = df_line
153                    else:
154                        try:
155                            disk_size, disk_used, disk_avail, disk_cap_pct, file_system = df_line.split()
156                            break
157                        except:
158                            pass
159                else:
160                    try:
161                        file_system, disk_size, disk_used, disk_avail, disk_cap_pct, mount = df_line.split()
162                        break
163                    except:
164                        pass
165            else:
166                break # EOF
167        df_file.close()
168        return ( file_system, disk_size, disk_used, disk_avail, disk_cap_pct, mount  )
169    @web.expose
170    def disk_usage( self, trans, **kwd ):
171        file_path = trans.app.config.file_path
172        disk_usage = self.get_disk_usage( file_path )
173        min_file_size = 2**32 # 4 Gb
174        file_size_str = nice_size( min_file_size )
175        datasets = trans.sa_session.query( model.Dataset ) \
176                                   .filter( and_( model.Dataset.table.c.purged == False,
177                                                  model.Dataset.table.c.file_size > min_file_size ) ) \
178                                   .order_by( desc( model.Dataset.table.c.file_size ) )
179        return file_path, disk_usage, datasets, file_size_str
180
181def nice_size( size ):
182    """Returns a readably formatted string with the size"""
183    words = [ 'bytes', 'Kb', 'Mb', 'Gb' ]
184    try:
185        size = float( size )
186    except:
187        return '??? bytes'
188    for ind, word in enumerate( words ):
189        step  = 1024 ** ( ind + 1 )
190        if step > size:
191            size = size / float( 1024 ** ind )
192            out  = "%.1f %s" % ( size, word )
193            return out
194    return '??? bytes'
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