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feat: pull OpenLinkSW fork changes #86

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merged 63 commits into from
Jan 4, 2025
Merged

feat: pull OpenLinkSW fork changes #86

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6f6b5b1
feat: pull OpenLinkSW fork changes
berezovskyi Dec 26, 2024
589bd39
fix: allow coherence to be added gradually to existing instances
berezovskyi Dec 26, 2024
02e9cd7
fix: Avro quirks
berezovskyi Dec 26, 2024
55466da
fix: Avro quirks 2
berezovskyi Dec 27, 2024
448e5d9
fix: Avro quirks 2
berezovskyi Dec 27, 2024
cfd15cd
fix: undo unintended change
berezovskyi Dec 29, 2024
5d8adef
fix: more fixes from the fork + make the AEvol code run on IV recalc
berezovskyi Dec 29, 2024
f007602
fix: typo
berezovskyi Dec 29, 2024
6575028
chore: switch to GOOGLE code style
berezovskyi Dec 29, 2024
b74c8d1
chore: extra logging
berezovskyi Dec 29, 2024
54d717c
fix: use either amonths or index.availability for the index page avai…
berezovskyi Dec 29, 2024
b6ff40b
use index.availability, ignore amonths
berezovskyi Dec 29, 2024
044240a
fix: pre-process index.availability
berezovskyi Dec 29, 2024
c08efd5
fix: type
berezovskyi Dec 29, 2024
85dcdd1
fix: Index page updates
berezovskyi Dec 29, 2024
a9feac7
chore: extra logging
berezovskyi Dec 31, 2024
e364bb5
feat: user agent and timeouts
berezovskyi Dec 31, 2024
3dbf7f5
feat: user agent and timeouts
berezovskyi Dec 31, 2024
1c90f4f
feat: user agent and timeouts
berezovskyi Dec 31, 2024
96f05e4
feat: improve scheduling
berezovskyi Dec 31, 2024
5a74dd3
feat: improve scheduling
berezovskyi Dec 31, 2024
1a3c06b
fix: scheduling
berezovskyi Dec 31, 2024
f33ba21
feat: new charts on the homepage [WIP]
berezovskyi Dec 31, 2024
f0e524a
fix: show new charts on the homepage
berezovskyi Dec 31, 2024
e337d87
refactor: schedules, user agents, and log strings
berezovskyi Dec 31, 2024
144a5ea
fix: API discovery template
berezovskyi Dec 31, 2024
7aa98e6
docs: update footer
berezovskyi Dec 31, 2024
82161a4
refactor: better fault handling
berezovskyi Dec 31, 2024
22b649b
refactor: better fault handling
berezovskyi Dec 31, 2024
bb4e4be
refactor: better fault handling
berezovskyi Dec 31, 2024
645bdfd
refactor: better fault handling
berezovskyi Dec 31, 2024
ad69d7c
refactor: better fault handling
berezovskyi Dec 31, 2024
cb4e405
refactor: better fault handling
berezovskyi Dec 31, 2024
a25affc
refactor: better fault handling
berezovskyi Dec 31, 2024
c750f18
refactor: better fault handling
berezovskyi Dec 31, 2024
36ff8c4
refactor: better fault handling
berezovskyi Dec 31, 2024
5a62cb2
refactor: better fault handling
berezovskyi Dec 31, 2024
4e98c89
refactor: better fault handling
berezovskyi Dec 31, 2024
d03f273
refactor: better fault handling
berezovskyi Dec 31, 2024
eec7020
refactor: better fault handling
berezovskyi Dec 31, 2024
539b07a
refactor: better fault handling
berezovskyi Dec 31, 2024
b79b763
refactor: better fault handling
berezovskyi Dec 31, 2024
371c968
refactor: better fault handling
berezovskyi Dec 31, 2024
4af8ffe
refactor: better fault handling
berezovskyi Dec 31, 2024
2ce1597
refactor: better fault handling
berezovskyi Dec 31, 2024
b5aefe0
refactor: better fault handling
berezovskyi Dec 31, 2024
81e4f3b
feat: calculate median threshold
berezovskyi Dec 31, 2024
37f55ea
refactor: better fault handling
berezovskyi Dec 31, 2024
4a526ff
refactor: better fault handling
berezovskyi Dec 31, 2024
6f69761
refactor: better fault handling
berezovskyi Dec 31, 2024
b6c4404
fix: safe access
berezovskyi Dec 31, 2024
e19556d
fix: safe access
berezovskyi Dec 31, 2024
63a884e
feat: calculate median threshold
berezovskyi Jan 1, 2025
1bc9d2d
fix: median threshold
berezovskyi Jan 1, 2025
ef03683
fix: index/avail calc
berezovskyi Jan 1, 2025
b2d8d21
wip: use index.avail by default
berezovskyi Jan 1, 2025
fcc133e
refactor: better fault handling
berezovskyi Jan 1, 2025
842ce81
refactor: better fault handling
berezovskyi Jan 1, 2025
eb27774
refactor: better fault handling
berezovskyi Jan 1, 2025
7e65653
feat: a script to add endpoints from VOID/SD metadata
berezovskyi Jan 1, 2025
26d3142
fix: timestamps in the views
berezovskyi Jan 3, 2025
7965e7b
Update backend/src/main/java/sparqles/analytics/PAnalyser.java
berezovskyi Jan 4, 2025
a586f9c
Update backend/src/main/java/sparqles/analytics/IndexViewAnalytics.java
berezovskyi Jan 4, 2025
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1 change: 1 addition & 0 deletions backend/src/main/avro/AResult.avsc
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Original file line number Diff line number Diff line change
@@ -1,5 +1,6 @@
{"namespace": "sparqles.avro.availability",
"type": "record",
"import" : "EndpointResult.avsc",
"name": "AResult",
"fields": [
{"name": "endpointResult", "type": "sparqles.avro.EndpointResult"},
Expand Down
28 changes: 28 additions & 0 deletions backend/src/main/avro/CResult.avsc
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@@ -0,0 +1,28 @@
{
"namespace": "sparqles.avro.calculation",
"type": "record",
"import" : "EndpointResult.avsc",
"name": "CResult",
"fields": [
{"name": "endpointResult", "type": "sparqles.avro.EndpointResult"},
{"name": "triples", "type": "long"},
{"name": "entities", "type": "long"},
{"name": "classes", "type": "long"},
{"name": "properties", "type": "long"},
{"name": "distinctSubjects", "type": "long"},
{"name": "distinctObjects", "type": "long"},
{"name": "exampleResources", "type":
{"type": "array", "items":
{
"name": "uri", "type": "string"
}
}
},
{"name": "VoID", "type": "string"},
{"name": "VoIDPart", "type": "boolean"},
{"name": "SD", "type": "string"},
{"name": "SDPart", "type": "boolean"},
{"name": "coherence", "type": "double"},
{"name": "RS", "type": "double"}
]
}
15 changes: 15 additions & 0 deletions backend/src/main/avro/CalculationView.avsc
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Original file line number Diff line number Diff line change
@@ -0,0 +1,15 @@
{
"namespace": "sparqles.avro.analytics",
"type": "record",
"name": "CalculationView",
"fields": [
{"name": "endpoint", "type": "sparqles.avro.Endpoint"},
{"name": "VoID", "type": "boolean"},
{"name": "VoIDPart", "type": "boolean"},
{"name": "SD", "type": "boolean"},
{"name": "SDPart", "type": "boolean"},
{"name": "coherence", "type": "double"},
{"name": "RS", "type": "double"},
{"name": "lastUpdate", "type": "long"}
]
}
1 change: 1 addition & 0 deletions backend/src/main/avro/DResult.avsc
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Original file line number Diff line number Diff line change
@@ -1,6 +1,7 @@
{
"namespace": "sparqles.avro.discovery",
"type": "record",
"import" : "EndpointResult.avsc",
"name": "DResult",
"fields": [
{"name": "endpointResult", "type": "sparqles.avro.EndpointResult"},
Expand Down
28 changes: 28 additions & 0 deletions backend/src/main/avro/EPView.avsc
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Expand Up @@ -124,6 +124,34 @@
{"name": "SDDescription" , "type": {"type": "array", "items": "array", "items" : "sparqles.avro.analytics.EPViewDiscoverabilityData"}}
]
}
},
{"name": "calculation", "type":
{
"namespace":"sparqles.avro.analytics",
"type":"record",
"name":"EPViewCalculation",
"fields":[
{"name": "triples", "type": "long"},
{"name": "entities", "type": "long"},
{"name": "classes", "type": "long"},
{"name": "properties", "type": "long"},
{"name": "distinctSubjects", "type": "long"},
{"name": "distinctObjects", "type": "long"},
{"name": "exampleResources", "type":
{"type": "array", "items":
{
"name": "uri", "type": "string"
}
}
},
{"name": "VoID", "type": "string"},
{"name": "VoIDPart", "type": "boolean"},
{"name": "SD", "type": "string"},
{"name": "SDPart", "type": "boolean"},
{"name": "coherence", "type": "double"},
{"name": "RS", "type": "double"}
]
}
}
]
}
2 changes: 2 additions & 0 deletions backend/src/main/avro/FResult.avsc
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Original file line number Diff line number Diff line change
@@ -1,6 +1,8 @@
{
"namespace": "sparqles.avro.features",
"type": "record",
"import" : "EndpointResult.avsc",
"import" : "Run.avsc",
"name": "FResult",
"fields": [
{"name": "endpointResult", "type": "sparqles.avro.EndpointResult"},
Expand Down
48 changes: 45 additions & 3 deletions backend/src/main/avro/Index.avsc
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Expand Up @@ -91,15 +91,14 @@
]
}
}
}
}
]
}
}
}
]
}
},

{"name": "discoverability", "type":
{
"namespace":"sparqles.avro.analytics",
Expand Down Expand Up @@ -137,7 +136,50 @@
]
}

},
{"name": "calculation", "type":
{
"namespace":"sparqles.avro.analytics",
"type":"record",
"name":"IndexViewCalculation",
"fields":[
{"name": "coherences" , "type":
{"type": "array", "items":
{
"namespace": "sparqles.avro.analytics",
"name": "IndexViewCalculationData",
"type": "record",
"fields" : [
{ "name": "key", "type": "string"},
{ "name": "values" , "type":
{ "type": "array", "items":
{
"namespace": "sparqles.avro.analytics",
"name": "IndexViewCalculationDataValues",
"type": "record",
"fields" : [
{ "name": "label", "type": "string"},
{ "name": "value", "type": "double"}
]
}
}
}
]
}
}
},
{"name": "rss" , "type":
{"type": "array", "items": "sparqles.avro.analytics.IndexViewCalculationData"}
},
{ "name": "VoID", "type": "double"},
{ "name": "VoIDPart", "type": "double"},
{ "name": "SD", "type": "double"},
{ "name": "SDPart", "type": "double"},
{ "name": "Coherence", "type": "double"},
{ "name": "RS", "type": "double"}
]
}

}
]
}

14 changes: 3 additions & 11 deletions backend/src/main/avro/PResult.avsc
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@@ -1,6 +1,8 @@
{
"namespace": "sparqles.avro.performance",
"type": "record",
"import" : "EndpointResult.avsc",
"import" : "Run.avsc",
"name": "PResult",
"fields": [
{"name": "endpointResult", "type": "sparqles.avro.EndpointResult"},
Expand All @@ -10,17 +12,7 @@
"type": "record",
"fields" : [
{ "name": "query", "type": "string"},
{ "name": "cold", "type":
{"type":"record","name":"Run","namespace":"sparqles.avro.performance",
"fields":[
{"name": "frestout", "type": "long"},
{"name": "solutions", "type": "int"},
{"name": "inittime", "type": "long"},
{"name": "exectime", "type": "long"},
{"name": "closetime", "type": "long"},
{"name": "Exception", "type": ["string", "null"]},
{"name": "exectout", "type": "long"}
]}},
{ "name": "cold", "type": "sparqles.avro.performance.Run"},
{ "name": "warm", "type": "sparqles.avro.performance.Run"}
]}
}
Expand Down
14 changes: 14 additions & 0 deletions backend/src/main/avro/Run.avsc
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Original file line number Diff line number Diff line change
@@ -0,0 +1,14 @@
{
"namespace":"sparqles.avro.performance",
"type":"record",
"name":"Run",
"fields":[
{"name": "frestout", "type": "long"},
{"name": "solutions", "type": "int"},
{"name": "inittime", "type": "long"},
{"name": "exectime", "type": "long"},
{"name": "closetime", "type": "long"},
{"name": "Exception", "type": ["string", "null"]},
{"name": "exectout", "type": "long"}
]
}
1 change: 1 addition & 0 deletions backend/src/main/avro/Schedule.avsc
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Original file line number Diff line number Diff line change
Expand Up @@ -8,6 +8,7 @@
{"name": "FTask", "type": ["string", "null"]},
{"name": "PTask", "type": ["string", "null"]},
{"name": "DTask", "type": ["string", "null"]},
{"name": "CTask", "type": ["string", "null"]},
{"name": "ITask", "type": ["string", "null"]},
{"name": "ETask", "type": ["string", "null"]}
]
Expand Down
138 changes: 71 additions & 67 deletions backend/src/main/config/log4j.properties
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Expand Up @@ -6,17 +6,73 @@ log4j.rootLogger=INFO, stdout, stderr
#log4j.logger.sparqles.core.features=DEBUG, flog
#log4j.logger.sparqles.core.performance=DEBUG, plog
#log4j.logger.sparqles.utils.ExceptionHandler=INFO, exlog
#DISABLE certain packages
log4j.logger.org.apache.http=WARN
log4j.logger.org.apache.commons.httpclient.params.DefaultHttpParams=INFO
log4j.logger.com.hp.hpl.jena.sparql=WARN
log4j.logger.org.apache.jena=WARN

# Direct log messages to a log file
log4j.appender.file=org.apache.log4j.DailyRollingFileAppender
log4j.appender.file.DatePattern = '.'yyyy-MM-dd
log4j.appender.file.Append = true
log4j.appender.file.Threshold=INFO
log4j.appender.file.File=logs/main.log
log4j.appender.file.layout=org.apache.log4j.PatternLayout
log4j.appender.file.layout.ConversionPattern=%d{dd-MM-yy HH:mm:ss} %15.15c{1}:%-3.3L %5p - %m%n

# Log all information for ATask log messages to a log file
log4j.appender.alog=org.apache.log4j.DailyRollingFileAppender
log4j.appender.alog.DatePattern = '.'yyyy-MM-dd
log4j.appender.alog.Append = true
log4j.appender.alog.Threshold=INFO
log4j.appender.alog.File=logs/availability.log
log4j.appender.alog.layout=org.apache.log4j.PatternLayout
log4j.appender.alog.layout.ConversionPattern=%d{dd-MM-yy HH:mm:ss} %15.15c{1}:%-3.3L %5p - %m%n


# Log all information for ATask log messages to exception log file
log4j.appender.exlog=org.apache.log4j.DailyRollingFileAppender
log4j.appender.exlog.DatePattern = '.'yyyy-MM-dd
log4j.appender.exlog.Append = true
log4j.appender.exlog.Threshold=INFO
log4j.appender.exlog.File=logs/exception.log
log4j.appender.exlog.layout=org.apache.log4j.PatternLayout
log4j.appender.exlog.layout.ConversionPattern=%d{dd-MM-yy HH:mm:ss} %15.15c{1}:%-3.3L %5p - %m%n



# Log all information for ATask log messages to a log file
log4j.appender.flog=org.apache.log4j.DailyRollingFileAppender
log4j.appender.flog.DatePattern = '.'yyyy-MM-dd
log4j.appender.flog.Append = true
log4j.appender.flog.Threshold=INFO
log4j.appender.flog.File=logs/interoperability.log
log4j.appender.flog.layout=org.apache.log4j.PatternLayout
log4j.appender.flog.layout.ConversionPattern=%d{dd-MM-yy HH:mm:ss} %15.15c{1}:%-3.3L %5p - %m%n

# Log all information for ATask log messages to a log file
log4j.appender.dlog=org.apache.log4j.DailyRollingFileAppender
log4j.appender.dlog.DatePattern = '.'yyyy-MM-dd
log4j.appender.dlog.Append = true
log4j.appender.dlog.Threshold=INFO
log4j.appender.dlog.File=logs/discoverability.log
log4j.appender.dlog.layout=org.apache.log4j.PatternLayout
log4j.appender.dlog.layout.ConversionPattern=%d{dd-MM-yy HH:mm:ss} %15.15c{1}:%-3.3L %5p - %m%n

# Log all information for ATask log messages to a log file
log4j.appender.plog=org.apache.log4j.DailyRollingFileAppender
log4j.appender.plog.DatePattern = '.'yyyy-MM-dd
log4j.appender.plog.Append = true
log4j.appender.plog.Threshold=INFO
log4j.appender.plog.File=logs/performance.log
log4j.appender.plog.layout=org.apache.log4j.PatternLayout
log4j.appender.plog.layout.ConversionPattern=%d{dd-MM-yy HH:mm:ss} %15.15c{1}:%-3.3L %5p - %m%n
Comment on lines +19 to +65
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🛠️ Refactor suggestion

Reduce configuration duplication and standardize naming

  1. There's significant duplication in appender configurations. All appenders share identical settings except for the file path.
  2. The naming is inconsistent: the logger uses features but the log file is named interoperability.log.

Consider:

  1. Using a property placeholder system to reduce duplication:
# Common settings
log4j.appender.common.DatePattern='.'yyyy-MM-dd
log4j.appender.common.Append=true
log4j.appender.common.Threshold=INFO
log4j.appender.common.layout=org.apache.log4j.PatternLayout
log4j.appender.common.layout.ConversionPattern=%d{dd-MM-yy HH:mm:ss} %15.15c{1}:%-3.3L %5p - %m%n

# Specific appenders inherit common settings
log4j.appender.alog=org.apache.log4j.DailyRollingFileAppender
log4j.appender.alog.File=logs/availability.log
# ... inherit common settings ...
  1. Standardize the naming convention between loggers and file names:
-log4j.logger.sparqles.core.features=DEBUG, flog 
+log4j.logger.sparqles.core.interoperability=DEBUG, ilog




# Direct log messages to stdout
log4j.appender.stdout=org.apache.log4j.ConsoleAppender
log4j.appender.stdout.Target=System.out
log4j.appender.stdout.layout=org.apache.log4j.PatternLayout
#log4j.appender.stdout.layout.ConversionPattern=%d{dd-MM-yy HH:mm:ss} %5p [%c{1}:%M:%L] - %m%n
#log4j.appender.stdout.layout.ConversionPattern=%d{dd-MM-yy HH:mm:ss} %15.15c{1}:%-3.3L %5p - %m%n

log4j.appender.stderr=org.apache.log4j.ConsoleAppender
log4j.appender.stderr.Target=System.err
log4j.appender.stderr.Threshold=ERROR
Expand All @@ -32,65 +88,13 @@ log4j.appender.stdout.layout.ConversionPattern=%d{dd-MM-yy HH:mm:ss} [%5p] %c:%L
log4j.appender.stderr.layout.ConversionPattern=%d{dd-MM-yy HH:mm:ss} [%5p] %c:%L - %m%n


# Don't want to log to file when in Docker
## Direct log messages to a log file
#log4j.appender.file=org.apache.log4j.DailyRollingFileAppender
#log4j.appender.file.DatePattern = '.'yyyy-MM-dd
#log4j.appender.file.Append = true
#log4j.appender.file.Threshold=INFO
#log4j.appender.file.File=logs/main.log
#log4j.appender.file.layout=org.apache.log4j.PatternLayout
#log4j.appender.file.layout.ConversionPattern=%d{dd-MM-yy HH:mm:ss} %15.15c{1}:%-3.3L %5p - %m%n
#
## Log all information for ATask log messages to a log file
#log4j.appender.alog=org.apache.log4j.DailyRollingFileAppender
#log4j.appender.alog.DatePattern = '.'yyyy-MM-dd
#log4j.appender.alog.Append = true
#log4j.appender.alog.Threshold=INFO
#log4j.appender.alog.File=logs/availability.log
#log4j.appender.alog.layout=org.apache.log4j.PatternLayout
#log4j.appender.alog.layout.ConversionPattern=%d{dd-MM-yy HH:mm:ss} %15.15c{1}:%-3.3L %5p - %m%n
#
#
## Log all information for ATask log messages to exception log file
#log4j.appender.exlog=org.apache.log4j.DailyRollingFileAppender
#log4j.appender.exlog.DatePattern = '.'yyyy-MM-dd
#log4j.appender.exlog.Append = true
#log4j.appender.exlog.Threshold=INFO
#log4j.appender.exlog.File=logs/exception.log
#log4j.appender.exlog.layout=org.apache.log4j.PatternLayout
#log4j.appender.exlog.layout.ConversionPattern=%d{dd-MM-yy HH:mm:ss} %15.15c{1}:%-3.3L %5p - %m%n
#
#
#
## Log all information for ATask log messages to a log file
#log4j.appender.flog=org.apache.log4j.DailyRollingFileAppender
#log4j.appender.flog.DatePattern = '.'yyyy-MM-dd
#log4j.appender.flog.Append = true
#log4j.appender.flog.Threshold=INFO
#log4j.appender.flog.File=logs/interoperability.log
#log4j.appender.flog.layout=org.apache.log4j.PatternLayout
#log4j.appender.flog.layout.ConversionPattern=%d{dd-MM-yy HH:mm:ss} %15.15c{1}:%-3.3L %5p - %m%n
#
## Log all information for ATask log messages to a log file
#log4j.appender.dlog=org.apache.log4j.DailyRollingFileAppender
#log4j.appender.dlog.DatePattern = '.'yyyy-MM-dd
#log4j.appender.dlog.Append = true
#log4j.appender.dlog.Threshold=INFO
#log4j.appender.dlog.File=logs/discoverability.log
#log4j.appender.dlog.layout=org.apache.log4j.PatternLayout
#log4j.appender.dlog.layout.ConversionPattern=%d{dd-MM-yy HH:mm:ss} %15.15c{1}:%-3.3L %5p - %m%n
#
## Log all information for ATask log messages to a log file
#log4j.appender.plog=org.apache.log4j.DailyRollingFileAppender
#log4j.appender.plog.DatePattern = '.'yyyy-MM-dd
#log4j.appender.plog.Append = true
#log4j.appender.plog.Threshold=INFO
#log4j.appender.plog.File=logs/performance.log
#log4j.appender.plog.layout=org.apache.log4j.PatternLayout
#log4j.appender.plog.layout.ConversionPattern=%d{dd-MM-yy HH:mm:ss} %15.15c{1}:%-3.3L %5p - %m%n
#
#log4j.appender.HTML=org.apache.log4j.FileAppender
#log4j.appender.HTML.File=logs/main.html
#log4j.appender.HTML.layout=org.apache.log4j.HTMLLayout
#log4j.appender.HTML.Threshold=DEBUG
log4j.appender.HTML=org.apache.log4j.FileAppender
log4j.appender.HTML.File=logs/main.html
log4j.appender.HTML.layout=org.apache.log4j.HTMLLayout
log4j.appender.HTML.Threshold=DEBUG

#DISABLE certain packages
log4j.logger.org.apache.http=WARN
log4j.logger.org.apache.commons.httpclient.params.DefaultHttpParams=INFO
log4j.logger.com.hp.hpl.jena.sparql=WARN
log4j.logger.org.apache.jena=WARN
1 change: 1 addition & 0 deletions backend/src/main/java/org/osjava/norbert/NoRobotClient.java
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Original file line number Diff line number Diff line change
Expand Up @@ -93,6 +93,7 @@ public NoRobotClient(String userAgent) {
// throw new NoRobotException("Problem while parsing "+txtUrl, nre);
// }
// }

public void parse(String txt, URL baseUrl) throws NoRobotException {
this.baseUrl = baseUrl;
parseText(txt);
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