ImportTsv command is not working in Hbase - hadoop

I am using HBase 0.98.1-cdh5.1.3. I am trying to ingest a csv file present in my hdfs at location /user/hdfs/exp to Hbase. My file has data in the following format:
1,abc,xyz
2,def,uvw
3,ghi,rst
I am using the command below:
bin/hbase org.apache.hadoop.hbase.mapreduce.ImportTsv '-Dimporttsv.separator=,' -Dimporttsv.columns=HBASE_ROW_KEY,CF:firstname,CF:lastname tablename /user/hdfs/exp
I have also used different combinations like
bin/hbase org.apache.hadoop.hbase.mapreduce.ImportTsv -Dimporttsv.columns=HBASE_ROW_KEY,CF:firstname,CF:lastname tablename /user/hdfs/exp '-Dimporttsv.separator=,'
and
bin/hbase org.apache.hadoop.hbase.mapreduce.ImportTsv -Dimporttsv.columns=HBASE_ROW_KEY,CF:firstname,CF:lastname '-Dimporttsv.separator=,' tablename /user/hdfs/exp
but nothing works. It fails to detect separator i.e , in my case and is not parsed properly. Can anybody help me figure out where I am going wrong.
this is just one line of data set:
10000064202896309897,1000006420,2896309897,10180,hdfs://btc5x015:8020/user/mr_test/logsJan/log_jan20_29/10180_log201501260000.log,3.2.3.1,9,2015-01-26,15:46:12.12,REF SHOULDER 4,n,n,SHOULDER,60,17.0,M,487093458,[study_16004_16004_],exam_16004_16004,[patient_16004_1_],Schulter std,SCHULTERGELENK RECHTS,8.10,NOT_EXIST,-8.1,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,n,NOT_EXIST,NOT_EXIST,y,n,HF,NOT_EXIST,NOT_EXIST,NOT_EXIST,,,NOT_EXIST,NOT_EXIST,N,NOT_EXIST,1,NOT_EXIST,IMAG,FFE,T1FFE,4.0,0.72,34,NOT_EXIST,NOT_EXIST,NOT_EXIST,4.0,cor,,NOT_EXIST,no,0,n,NOT_EXIST,1,0.0,,,,,,,NOT_EXIST,102,NOT_EXIST,NOT_EXIST,NOT_EXIST,15:45:29.28,15:46:12.12,15:46:12.12,9.5,9.4,1.002,NOT_EXIST,TRUE,no,NOT_EXIST,0.0,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,0.0,NOT_EXIST,NOT_EXIST,0.0,0.09,0.3,3.3,0,false,false,n,n,26.1,LT,0.33,0.03,NOT_EXIST,null,1,Dres.GrafKernHausmann,E:\Export\DataMonitoring\p_i_20150126_154530.frame,hdfs://btc5x015.code1.emi.philips.com:8020/user/mr_test/logsJan/log_jan20_29/10180_log201501260000.log,317774,883,0,0,1,8,6,2,0,0,0,0,0,0,6014,0,15:44:08.15,15:44:59.93,15:45:23.14,15:45:29.28,00:00:00.00,00:00:00.00,15:45:30.57,15:45:38.45,15:45:29.28,15:46:12.12,15:45:38.45,15:46:12.12,42984,33967,0,7988,6014,00:00:00.00,00:00:00.00,0,00:00:00.00,00:00:00.00,0,169,102,SENSE-SHOULDER8,,SENSE-SHOULDER8/(19) BODY-QUAD,190,190,CLINICAL,0,0,94166709,Radiologische Gemeinschaftspraxis,Dr. med. Michael Graf,Dr. med. Andreas Kern,Dr. med. Hausmann,Wetzlar,35578,Hausertorstr. 47,6,NOT_EXIST,1,NOT_EXIST,NO,NOT_EXIST,NOT_EXIST,NOT_EXIST,1,NOT_EXIST,NOT_EXIST,NOT_EXIST,NO,NOT_EXIST,SHORTEST,NOT_EXIST,SHORTEST,1,NO,YES,DEFAULT,FFE,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,3,NOT_EXIST,CARTESIAN,YES,NO,NOT_EXIST,NO,NOT_EXIST,low,FULL,NOT_EXIST,NOT_EXIST,NOT_EXIST,3D,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,YES,NOT_EXIST,no,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NO,NOT_EXIST,USER_DEF,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NO,DEF,H,NOT_EXIST,NOT_EXIST,NO,NOT_EXIST,NOT_EXIST,NOT_EXIST,MPU_MTC_MODE_NO,NO,NOT_EXIST,T1,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NO,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,450,405,YES,Supine,HF,NOT_EXIST,NO,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,DEFAULT,NOT_EXIST,2,SENSE-SHOULDER8 BODY-QUAD,F,400 400,,,100 100,5.625,7.23214293,4,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NO,NO,NOT_EXIST,NOT_EXIST,80,PARALLEL,NO,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NO,NOT_EXIST,0,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,OFF,NOT_EXIST,NO,NO,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,NOT_EXIST,0,5.625,NOT_EXIST,NOT_EXIST,NOT_EXIST,10180,15:45:29.29,15:46:13.76,null,,,96,,1,,,0,10180,PATTERN_SRN,SHOULDER,SCHULTER,MATCHED_SHOULDER,SHOULDER,UPPER EXTREMITIES,ANATOMY_GROUP_MAPPED,10180,10180,10180,3.2.3,Achieva 3.0T,Achieva,T30,3.0T,NO,F2000,Watercooled2,274-D,Master,NONE,,,0,16,0,1,S26_128,NONE,8,null,CDAS,LOGFOLDER_SYSFOLDER_MATCHED_RELEASE_NOT_CHECKED,FALSE,null,null,null,null,12.15,SENSE-SHOULDER8/(19) Q-BODY,0,SCAN_PARSE_SUCCESS,SHOULDER,-4.64757729 5.37445641,


I just loaded a single line give in question into hbase table with ImportTSV command by providing 414 columns and it worked perfectly for me.Here is a command that I used.
hbase org.apache.hadoop.hbase.mapreduce.ImportTsv -Dimporttsv.columns=HBASE_ROW_KEY,CF:c1,CF:c2,CF:c3,CF:c4,CF:c5,CF:c6,CF:c7,CF:c8,CF:c9,CF:c10,CF:c11,CF:c12,CF:c13,CF:c14,CF:c15,CF:c16,CF:c17,CF:c18,CF:c19,CF:c20,CF:c21,CF:c22,CF:c23,CF:c24,CF:c25,CF:c26,CF:c27,CF:c28,CF:c29,CF:c30,CF:c31,CF:c32,CF:c33,CF:c34,CF:c35,CF:c36,CF:c37,CF:c38,CF:c39,CF:c40,CF:c41,CF:c42,CF:c43,CF:c44,CF:c45,CF:c46,CF:c47,CF:c48,CF:c49,CF:c50,CF:c51,CF:c52,CF:c53,CF:c54,CF:c55,CF:c56,CF:c57,CF:c58,CF:c59,CF:c60,CF:c61,CF:c62,CF:c63,CF:c64,CF:c65,CF:c66,CF:c67,CF:c68,CF:c69,CF:c70,CF:c71,CF:c72,CF:c73,CF:c74,CF:c75,CF:c76,CF:c77,CF:c78,CF:c79,CF:c80,CF:c81,CF:c82,CF:c83,CF:c84,CF:c85,CF:c86,CF:c87,CF:c88,CF:c89,CF:c90,CF:c91,CF:c92,CF:c93,CF:c94,CF:c95,CF:c96,CF:c97,CF:c98,CF:c99,CF:c100,CF:c101,CF:c102,CF:c103,CF:c104,CF:c105,CF:c106,CF:c107,CF:c108,CF:c109,CF:c110,CF:c111,CF:c112,CF:c113,CF:c114,CF:c115,CF:c116,CF:c117,CF:c118,CF:c119,CF:c120,CF:c121,CF:c122,CF:c123,CF:c124,CF:c125,CF:c126,CF:c127,CF:c128,CF:c129,CF:c130,CF:c131,CF:c132,CF:c133,CF:c134,CF:c135,CF:c136,CF:c137,CF:c138,CF:c139,CF:c140,CF:c141,CF:c142,CF:c143,CF:c144,CF:c145,CF:c146,CF:c147,CF:c148,CF:c149,CF:c150,CF:c151,CF:c152,CF:c153,CF:c154,CF:c155,CF:c156,CF:c157,CF:c158,CF:c159,CF:c160,CF:c161,CF:c162,CF:c163,CF:c164,CF:c165,CF:c166,CF:c167,CF:c168,CF:c169,CF:c170,CF:c171,CF:c172,CF:c173,CF:c174,CF:c175,CF:c176,CF:c177,CF:c178,CF:c179,CF:c180,CF:c181,CF:c182,CF:c183,CF:c184,CF:c185,CF:c186,CF:c187,CF:c188,CF:c189,CF:c190,CF:c191,CF:c192,CF:c193,CF:c194,CF:c195,CF:c196,CF:c197,CF:c198,CF:c199,CF:c200,CF:c201,CF:c202,CF:c203,CF:c204,CF:c205,CF:c206,CF:c207,CF:c208,CF:c209,CF:c210,CF:c211,CF:c212,CF:c213,CF:c214,CF:c215,CF:c216,CF:c217,CF:c218,CF:c219,CF:c220,CF:c221,CF:c222,CF:c223,CF:c224,CF:c225,CF:c226,CF:c227,CF:c228,CF:c229,CF:c230,CF:c231,CF:c232,CF:c233,CF:c234,CF:c235,CF:c236,CF:c237,CF:c238,CF:c239,CF:c240,CF:c241,CF:c242,CF:c243,CF:c244,CF:c245,CF:c246,CF:c247,CF:c248,CF:c249,CF:c250,CF:c251,CF:c252,CF:c253,CF:c254,CF:c255,CF:c256,CF:c257,CF:c258,CF:c259,CF:c260,CF:c261,CF:c262,CF:c263,CF:c264,CF:c265,CF:c266,CF:c267,CF:c268,CF:c269,CF:c270,CF:c271,CF:c272,CF:c273,CF:c274,CF:c275,CF:c276,CF:c277,CF:c278,CF:c279,CF:c280,CF:c281,CF:c282,CF:c283,CF:c284,CF:c285,CF:c286,CF:c287,CF:c288,CF:c289,CF:c290,CF:c291,CF:c292,CF:c293,CF:c294,CF:c295,CF:c296,CF:c297,CF:c298,CF:c299,CF:c300,CF:c301,CF:c302,CF:c303,CF:c304,CF:c305,CF:c306,CF:c307,CF:c308,CF:c309,CF:c310,CF:c311,CF:c312,CF:c313,CF:c314,CF:c315,CF:c316,CF:c317,CF:c318,CF:c319,CF:c320,CF:c321,CF:c322,CF:c323,CF:c324,CF:c325,CF:c326,CF:c327,CF:c328,CF:c329,CF:c330,CF:c331,CF:c332,CF:c333,CF:c334,CF:c335,CF:c336,CF:c337,CF:c338,CF:c339,CF:c340,CF:c341,CF:c342,CF:c343,CF:c344,CF:c345,CF:c346,CF:c347,CF:c348,CF:c349,CF:c350,CF:c351,CF:c352,CF:c353,CF:c354,CF:c355,CF:c356,CF:c357,CF:c358,CF:c359,CF:c360,CF:c361,CF:c362,CF:c363,CF:c364,CF:c365,CF:c366,CF:c367,CF:c368,CF:c369,CF:c370,CF:c371,CF:c372,CF:c373,CF:c374,CF:c375,CF:c376,CF:c377,CF:c378,CF:c379,CF:c380,CF:c381,CF:c382,CF:c383,CF:c384,CF:c385,CF:c386,CF:c387,CF:c388,CF:c389,CF:c390,CF:c391,CF:c392,CF:c393,CF:c394,CF:c395,CF:c396,CF:c397,CF:c398,CF:c399,CF:c400,CF:c401,CF:c402,CF:c403,CF:c404,CF:c405,CF:c406,CF:c407,CF:c408,CF:c409,CF:c410,CF:c411,CF:c412,CF:c413,CF:c414 '-Dimporttsv.separator=,' tablename /user/hdfs/exp
I have given random column name , you can update it as per your need.
Note : Make sure that number of columns you are passing through command are matching with your input data source. Even I got Bad Line issue when I passed 412 columns instead of 414.
Hope this will help.:)


It looks like the single quotation is misplaced while specifying separator. Try using this: -Dimporttsv.separator=',' instead of '-Dimporttsv.separator=,'
If the input file is prepared such that any column value consists of a field delimiter (in this case, comma), it will fail. Better to keep a different delimiter (such as |) while preparing the CSV file

Related

How to load csv file from hdfs to hbase table using Dimporttsv

I am trying to load csv file into an hbase table using shell command Dimporttsv.
The csv files reside in a dir in my hdfs (/csvFiles)
the csv file was generated from a mysql table with the following feilds:
+-------------+
Field
+-------------+
tweet_id
user_id
screen_name
description
created_at
+-------------+
I created a table in hbase with a single family name as shown below:
create 'dummyTable', 'cf1'
the command I am using:
ImportTsv -Dimporttsv.separator=',' -Dimporttsv.columns=HBASE_ROW_KEY,cf1:user_id,cf1:tweet_id,cf1:screen_name,cf1:description,cf1:created_at dummyTable /csvFiles/all_users.csv
however I am getting this syntax error:
SyntaxError: (hbase):8: syntax error, unexpected tSYMBEG
I've looked at the following posts and followed the recommendations in them but to no avail. I would appreciate your help.
Import TSV file into hbase table
https://community.hortonworks.com/articles/4942/import-csv-data-into-hbase-using-importtsv.html
http://hbase.apache.org/book.html#importtsv

Exit from Hbase shell and try by adding single quotes to importtsv.columns
bash$ hbase org.apache.hadoop.hbase.mapreduce.ImportTsv -Dimporttsv.separator=',' -Dimporttsv.columns='HBASE_ROW_KEY,cf1:user_id,cf1:tweet_id,cf1:screen_name,cf1:description,cf1:created_at' dummyTable hdfs://<your_name_node_addr>/csvFiles/all_users.csv
(or)
From Hbase Shell:
hbase(main):001:0> ImportTsv -Dimporttsv.separator=',' -Dimporttsv.columns='HBASE_ROW_KEY,cf1:user_id,cf1:tweet_id,cf1:screen_name,cf1:description,cf1:created_at' dummyTable hdfs://<your_name_node_addr>/csvFiles/all_users.csv

Hive INSERT OVERWRITE to Google Storage as LOCAL DIRECTORY not working

I use the following Hive Query:
hive> INSERT OVERWRITE LOCAL DIRECTORY "gs:// Google/Storage/Directory/Path/Name" row format delimited fields terminated by ','
select * from <HiveDatabaseName>.<HiveTableName>;
I am getting the following error:
"Error: Failed with exception Wrong FS:"gs:// Google/Storage/Directory/PathName", expected: file:///
What could I be doing wrong?

Remove Local from your syntax.
See the below syntax
INSERT OVERWRITE DIRECTORY 'gs://Your_Bucket_Path/'
ROW FORMAT DELIMITED FIELDS TERMINATED BY ','
LINES TERMINATED BY "\n"
SELECT * FROM YourExistingTable;

There's a bug in Hive, including IIRC Hive 1.2.1, where it uses the configured fs.default.name or fs.defaultFS for its scratchdir even if the table path is in a different filesystem. In your case, it appears you have the out-of-the-box defaults setting fs.defaultFS to file:///, which is why it says "expected: file:///". On a distributed Hadoop cluster, you might see it say "expected: hdfs://..." instead.
You can fix it within the single hive prompt by overriding fs.default.name and fs.defaultFS:
> set fs.default.name=gs://your-bucket/
> set fs.defaultFS=gs://your-bucket/
You may also want to modify those entries inside your core-site.xml file to point at your GCS location to make it easier.

How to do a bulkload to Hbase from CSV from command line

I am trying to do a bulkload which is a csv file using command line.
This is what I am trying
bin/hbase org.apache.hadoop.hbase.mapreduce.LoadIncrementalHFiles hdfs://localhost:9000/transactionsFile.csv bulkLoadtable
The error I am getting is below:
15/09/01 13:49:44 WARN mapreduce.LoadIncrementalHFiles: Skipping non-directory hdfs://localhost:9000/transactionsFile.csv
15/09/01 13:49:44 WARN mapreduce.LoadIncrementalHFiles: Bulk load operation did not find any files to load in directory hdfs://localhost:9000/transactionsFile.csv. Does it contain files in subdirectories that correspond to column family names?
Is it possible to do bulkload from command line without using java mapreduce.

You are almost correct, only thing missed is that the input to the bulkLoadtable must be directory. I suggest to keep the csv file under a directory and pass the path upto directory name as an argument to the command. Please refer the below link.
https://hbase.apache.org/apidocs/org/apache/hadoop/hbase/mapreduce/LoadIncrementalHFiles.html#doBulkLoad(org.apache.hadoop.fs.Path,%20org.apache.hadoop.hbase.client.Admin,%20org.apache.hadoop.hbase.client.Table,%20org.apache.hadoop.hbase.client.RegionLocator)
Hope this helps.

You can do bulk load from command line,
There are multiple ways to do this,
a. Prepare your data by creating data files (StoreFiles) from a MapReduce job using HFileOutputFormat.
b. Import the prepared data using the completebulkload tool
eg: hadoop jar hbase-VERSION.jar completebulkload [-c /path/to/hbase/config/hbase-site.xml] /user/todd/myoutput mytable
more details,
hbase bulk load
2.
Using importtsv
eg:
hbase> hbase org.apache.hadoop.hbase.mapreduce.ImportTsv -Dimporttsv.separator=, -Dimporttsv.columns="HBASE_ROW_KEY,id,temp:in,temp:out,vibration,pressure:in,pressure:out" sensor hdfs://sandbox.hortonworks.com:/tmp/hbase.csv
more details

How to get the hive table output or text file in hdfs on which hive table created to .CSV format.

So there is one condition with the cluster i'm working on. Nothing can be taken out of cluster to linux box.
Files on which hive table are built are in sequence file format or text format.
I need to change those files to CSV format with out outputting them to linux box and also i can create table from existing table which can be STORED AS CSVfile if possible. (i'm not sure if i can do that).
I have tried lot things..but couldn't do it unless i output it to linux box. Any help is appreciated.

You can create another hive table like this:
CREATE TABLE hivetable_csv ROW FORMAT DELIMITED
FIELDS TERMINATED BY ','
LINES TERMINATED BY '\n' as
select * from hivetable;
Then copy the table contents to a new directory
hadoop fs -cat /user/hive/warehouse/csv_dump/* | hadoop fs -put - /user/username/hivetable.csv
Alternatively, you can also try
hadoop fs -cp

Hive creates empty table, even there're plenty of file

I put some files into hdfs (/path/to/directory/) which contain data like following;
63 EB44863EA74AA0C5D3ECF3D678A7DF59
62 FABBC9ED9719A5030B2F6A4591EDB180
59 6BF6D40AF15DE2D7E295EAFB9574BBF8
All of them named as _user_hive_warehouse_file_name_000XYZ_A. These files had downloaded from another hdfs.
I'm trying to create external table via Hive;
CREATE EXTERNAL TABLE users(
id int,
user string
)
ROW FORMAT DELIMITED FIELDS TERMINATED BY '\t'
LOCATION '/path/to/directory/';
It says;
OK
Time taken: 0.098 seconds
select * from users; returns empty.
select count(1) from users; returns 0.
Hive creates the table successfully, but it's always empty. If I put another file like another.txt, that contains the sample data mentioned above, select count(1) from users; returns 3.
What am I missing, why the table is empty?
Environment:
JDK 7
Hadoop 2.6.0
Hive 0.14.0
Ubuntu 14.04

I think you are encountering an issue that is peripherally discussed in HIVE-6431. In particular, this comment is the important one:
By default, FileInputFormat(which is the super class of various formats) in hadoop ignores file name starts with "_" or ".", and hard to walk around this in hive codebase.
The workaround is probably to avoid using filenames that begin with _ or .

When you run any command on Hive, it is run internally as a MapReduce Job on the HDFS path that you stored the file. The job uses the FileInputFormat to read the HDFS files which has a hiddenFileFilter which ignores any files starting with underscore ("_") and ("."). You can actually set other files to ignore by setting the FileInputFormat.SetInputPathFilter to a CustomPathFilter. Hadoop uses the files with underscores are "special" files to show job output and logs. This is probably why they are ignored.

Resources