# TypeError: 'JavaPackage' object is not callable **URL:** \ **Category:** Hail Query & hailctl\ **Created:** [July 10, 2017, 8:06pm UTC](https://discuss.hail.is/t/typeerror-javapackage-object-is-not-callable/250 "2017-07-10T20:06:33Z")\ **Posts on this page:** 11\ **Page:** 2
**Author:** ![tpoterba](https://yyz2.discourse-cdn.com/flex036/user_avatar/discuss.hail.is/tpoterba/32/61_2.png) [@tpoterba](https://discuss.hail.is/u/tpoterba)\ **Post date:** [August 8, 2019, 2:18am UTC](https://discuss.hail.is/t/typeerror-javapackage-object-is-not-callable/250/21 "2019-08-08T02:18:29Z")
```auto 1 mt= hl.balding_nichols_model(n_populations=3, n_samples=50, n_variants=100) ----> 2 mt.count() ``` This shouldn’t OOM. The log also never saw the IR come in ---
**Author:** ![him26](https://avatars.discourse-cdn.com/v4/letter/h/94ad74/32.png) [@him26](https://discuss.hail.is/u/him26)\ **Post date:** [August 8, 2019, 2:34am UTC](https://discuss.hail.is/t/typeerror-javapackage-object-is-not-callable/250/22 "2019-08-08T02:34:44Z")
It has 503G total. I will try your suggestion. Ok some of the error output changed below is what I get from the notebook side > 2019-08-09 11:29:00 Hail: INFO: balding\_nichols\_model: generating genotypes for 3 populations, 50 samples, and 100 variants… > ERROR:root:Exception while sending command. > Traceback (most recent call last): > File “/home/him/miniconda3/envs/hail/lib/python3.6/site-packages/py4j/java\_gateway.py”, line 1159, in send\_command > raise Py4JNetworkError(“Answer from Java side is empty”) > py4j.protocol.Py4JNetworkError: Answer from Java side is empty > > During handling of the above exception, another exception occurred: > > Traceback (most recent call last): > File “/home/him/miniconda3/envs/hail/lib/python3.6/site-packages/py4j/java\_gateway.py”, line 985, in send\_command > response = connection.send\_command(command) > File “/home/him/miniconda3/envs/hail/lib/python3.6/site-packages/py4j/java\_gateway.py”, line 1164, in send\_command > “Error while receiving”, e, proto.ERROR\_ON\_RECEIVE) > py4j.protocol.Py4JNetworkError: Error while receiving > > Py4JError Traceback (most recent call last) > in > 1 mt= hl.balding\_nichols\_model(n\_populations=3, n\_samples=50, n\_variants=100) > ----\> 2 mt.count() > > ~/miniconda3/envs/hail/lib/python3.6/site-packages/hail/matrixtable.py in count(self) > 2418 Number of rows, number of cols. > 2419 “”" > → 2420 return (self.count\_rows(), self.count\_cols()) > 2421 > 2422 @typecheck\_method(output=str, > > \ in count\_rows(self, \_localize) > > ~/miniconda3/envs/hail/lib/python3.6/site-packages/hail/typecheck/check.py in wrapper(\_\_original\_func, \*args, \*\*kwargs) > 583 def wrapper(_original\_func, \*args, \*\*kwargs): > 584 args, kwargs_ = check\_all(\_\_original\_func, args, kwargs, checkers, is\_method=is\_method) > → 585 return _original\_func(\*args, \*\*kwargs_) > 586 > 587 return wrapper > > ~/miniconda3/envs/hail/lib/python3.6/site-packages/hail/matrixtable.py in count\_rows(self, \_localize) > 2373 ir = TableCount(MatrixRowsTable(self.\_mir)) > 2374 if \_localize: > → 2375 return Env.backend().execute(ir) > 2376 else: > 2377 return construct\_expr(ir, hl.tint64) > > ~/miniconda3/envs/hail/lib/python3.6/site-packages/hail/backend/backend.py in execute(self, ir, timed) > 106 > 107 def execute(self, ir, timed=False): > → 108 result = json.loads(Env.hc().\_jhc.backend().executeJSON(self.\_to\_java\_ir(ir))) > 109 value = ir.typ.\_from\_json(result[‘value’]) > 110 timings = result[‘timings’] > > ~/miniconda3/envs/hail/lib/python3.6/site-packages/py4j/java\_gateway.py in **call** (self, \*args) > 1255 answer = self.gateway\_client.send\_command(command) > 1256 return\_value = get\_return\_value( > → 1257 answer, self.gateway\_client, self.target\_id, self.name) > 1258 > 1259 for temp\_arg in temp\_args: > > ~/miniconda3/envs/hail/lib/python3.6/site-packages/hail/utils/java.py in deco(\*args, \*\*kwargs) > 207 import pyspark > 208 try: > → 209 return f(\*args, \*\*kwargs) > 210 except py4j.protocol.Py4JJavaError as e: > 211 s = e.java\_exception.toString() > > ~/miniconda3/envs/hail/lib/python3.6/site-packages/py4j/protocol.py in get\_return\_value(answer, gateway\_client, target\_id, name) > 334 raise Py4JError( > 335 “An error occurred while calling {0}{1}{2}”. > → 336 format(target\_id, “.”, name)) > 337 else: > 338 type = answer[1] > > Py4JError: An error occurred while calling o51.executeJSON below is what I see on the terminal > [I 11:28:44.633 NotebookApp] Adapting from protocol version 5.1 (kernel 154409c5-822d-4413-aadc-d5ba0c8be324) to 5.3 (client). > 2019-08-09 11:28:56 WARN NativeCodeLoader:62 - Unable to load native-hadoop library for your platform… using builtin-java classes where applicable > Setting default log level to “WARN”. > To adjust logging level use sc.setLogLevel(newLevel). For SparkR, use setLogLevel(newLevel). > ERROR: dlopen(“/tmp/libhail6261548975316297961.so”): /lib64/libstdc++.so.6: version `CXXABI_1.3.8' not found (required by /tmp/libhail6261548975316297961.so) FATAL: caught exception java.lang.UnsatisfiedLinkError: /tmp/libhail6261548975316297961.so: /lib64/libstdc++.so.6: version `CXXABI\_1.3.8’ not found (required by /tmp/libhail6261548975316297961.so) > java.lang.UnsatisfiedLinkError: /tmp/libhail6261548975316297961.so: /lib64/libstdc++.so.6: version `CXXABI\_1.3.8’ not found (required by /tmp/libhail6261548975316297961.so) > at java.lang.ClassLoader$NativeLibrary.load(Native Method) > at java.lang.ClassLoader.loadLibrary0(ClassLoader.java:1941) > at java.lang.ClassLoader.loadLibrary(ClassLoader.java:1824) > at java.lang.Runtime.load0(Runtime.java:809) > at java.lang.System.load(System.java:1086) > at is.hail.nativecode.NativeCode.(NativeCode.java:30) > at is.hail.nativecode.NativeBase.(NativeBase.scala:20) > at is.hail.annotations.Region.(Region.scala:175) > at is.hail.annotations.Region$.apply(Region.scala:16) > at is.hail.annotations.Region$.scoped(Region.scala:18) > at is.hail.expr.ir.ExecuteContext$.scoped(ExecuteContext.scala:7) > at is.hail.backend.Backend.execute(Backend.scala:86) > at is.hail.backend.Backend.executeJSON(Backend.scala:92) > at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) > at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) > at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) > at java.lang.reflect.Method.invoke(Method.java:498) > at py4j.reflection.MethodInvoker.invoke(MethodInvoker.java:244) > at py4j.reflection.ReflectionEngine.invoke(ReflectionEngine.java:357) > at py4j.Gateway.invoke(Gateway.java:282) > at py4j.commands.AbstractCommand.invokeMethod(AbstractCommand.java:132) > at py4j.commands.CallCommand.execute(CallCommand.java:79) > at py4j.GatewayConnection.run(GatewayConnection.java:238) > at java.lang.Thread.run(Thread.java:745) Trying out your settting did cause some changes. It displays that it’s using 4.1gb of memory. But did not solve the problem. Below is the hail.log file output. I am only posting the ending part where it might be relevant. Any other suggestions? Thank you. > 2019-08-09 11:28:59 Hail: INFO: Running Hail version 0.2.19-c6ec8b76eb26 > 2019-08-09 11:28:59 MemoryStore: INFO: Block broadcast\_0 stored as values in memory (estimated size 33.5 KB, free 4.1 GB) > 2019-08-09 11:28:59 MemoryStore: INFO: Block broadcast\_0\_piece0 stored as bytes in memory (estimated size 2.9 KB, free 4.1 GB) > 2019-08-09 11:28:59 BlockManagerInfo: INFO: Added broadcast\_0\_piece0 in memory on test:35006 (size: 2.9 KB, free: 4.1 GB) > 2019-08-09 11:28:59 SparkContext: INFO: Created broadcast 0 from broadcast at SparkBackend.scala:26 > 2019-08-09 11:29:00 MemoryStore: INFO: Block broadcast\_1 stored as values in memory (estimated size 1643.2 KB, free 4.1 GB) > 2019-08-09 11:29:00 MemoryStore: INFO: Block broadcast\_1\_piece0 stored as bytes in memory (estimated size 108.4 KB, free 4.1 GB) > 2019-08-09 11:29:00 BlockManagerInfo: INFO: Added broadcast\_1\_piece0 in memory on test:35006 (size: 108.4 KB, free: 4.1 GB) > 2019-08-09 11:29:00 SparkContext: INFO: Created broadcast 1 from broadcast at SparkBackend.scala:26 > 2019-08-09 11:29:00 MemoryStore: INFO: Block broadcast\_2 stored as values in memory (estimated size 8.7 KB, free 4.1 GB) > 2019-08-09 11:29:00 MemoryStore: INFO: Block broadcast\_2\_piece0 stored as bytes in memory (estimated size 1000.0 B, free 4.1 GB) > 2019-08-09 11:29:00 BlockManagerInfo: INFO: Added broadcast\_2\_piece0 in memory on test:35006 (size: 1000.0 B, free: 4.1 GB) > 2019-08-09 11:29:00 SparkContext: INFO: Created broadcast 2 from broadcast at SparkBackend.scala:26 > 2019-08-09 11:29:00 SparkContext: WARN: Using an existing SparkContext; some configuration may not take effect. > 2019-08-09 11:29:00 Hail: INFO: balding\_nichols\_model: generating genotypes for 3 populations, 50 samples, and 100 variants… > 2019-08-09 11:29:01 SparkContext: INFO: Invoking stop() from shutdown hook > 2019-08-09 11:29:01 AbstractConnector: INFO: Stopped Spark@1d783d20{HTTP/1.1,[http/1.1]}{0.0.0.0:4040} > 2019-08-09 11:29:01 SparkUI: INFO: Stopped Spark web UI at [http://test:4040](http://test:4040) > 2019-08-09 11:29:01 MapOutputTrackerMasterEndpoint: INFO: MapOutputTrackerMasterEndpoint stopped! > 2019-08-09 11:29:01 MemoryStore: INFO: MemoryStore cleared > 2019-08-09 11:29:01 BlockManager: INFO: BlockManager stopped > 2019-08-09 11:29:01 BlockManagerMaster: INFO: BlockManagerMaster stopped > 2019-08-09 11:29:01 OutputCommitCoordinator$OutputCommitCoordinatorEndpoint: INFO: OutputCommitCoordinator stopped! > 2019-08-09 11:29:01 SparkContext: INFO: Successfully stopped SparkContext > 2019-08-09 11:29:01 ShutdownHookManager: INFO: Shutdown hook called > 2019-08-09 11:29:01 ShutdownHookManager: INFO: Deleting directory /tmp/spark-1bd29d38-6dd0-4562-aae1-2b598144c213 > 2019-08-09 11:29:01 ShutdownHookManager: INFO: Deleting directory /tmp/spark-332bfc01-8301-4c33-af4c-d1d36e1ac9a0 ---
**Author:** ![carleshf](https://yyz2.discourse-cdn.com/flex036/user_avatar/discuss.hail.is/carleshf/32/305_2.png) [@carleshf](https://discuss.hail.is/u/carleshf)\ **Post date:** [September 17, 2019, 12:22pm UTC](https://discuss.hail.is/t/typeerror-javapackage-object-is-not-callable/250/23 "2019-09-17T12:22:04Z")
Hi all! I am having the same issue. My configuration follows: ``` conda activate hail export SPARK_HOME=/Users/chernandez/Software/spark-2.4.4-bin-hadoop2.7 export PATH=/Users/chernandez/Software/spark-2.4.4-bin-hadoop2.7/bin:$PATH export HAIL_HOME=$(pip show hail | grep Location | awk -F' ' '{print $2 "/hail"}') export PYTHONPATH="$HAIL_HOME:$SPARK_HOME/python:`echo $SPARK_HOME/python/lib/py4j*-src.zip`:$PYTHONPATH" export SPARK_CLASSPATH=$HAIL_HOME/hail-all-spark.jar ``` The error is raised on `init`: ``` import hail as hl main_conf = # ... # spark_conf = SparkConf().setAppName(APP_NAME).set('spark.executor.cores', cores) spark = SparkSession.builder.config(conf=spark_conf).getOrCreate() spark.sparkContext._jsc.hadoopConfiguration().setInt("dfs.block.size", main_conf["dfs_block_size"]) spark.sparkContext._jsc.hadoopConfiguration().setInt("parquet.block.size", main_conf["dfs_block_size"]) hl.init(spark.sparkContext) ``` The full trace of the error is: ``` Traceback (most recent call last): File "", line 1, in File "", line 2, in init File "/Users/.../.anaconda3/envs/hail/lib/python3.6/site-packages/hail/typecheck/check.py", line 585, in wrapper return __original_func(*args_, **kwargs_) File "/Users/.../.anaconda3/envs/hail/lib/python3.6/site-packages/hail/context.py", line 264, in init _optimizer_iterations,_backend) File "", line 2, in __init__ File "/Users/.../.anaconda3/envs/hail/lib/python3.6/site-packages/hail/typecheck/check.py", line 585, in wrapper return __original_func(*args_, **kwargs_) File "/Users/.../.anaconda3/envs/hail/lib/python3.6/site-packages/hail/context.py", line 99, in __init__ min_block_size, branching_factor, tmp_dir, optimizer_iterations) TypeError: 'JavaPackage' object is not callable ``` My main headache is that the “same” set-up is working fine in Ubuntu but not in Mac OS 😢 ---
**Author:** ![tpoterba](https://yyz2.discourse-cdn.com/flex036/user_avatar/discuss.hail.is/tpoterba/32/61_2.png) [@tpoterba](https://discuss.hail.is/u/tpoterba)\ **Post date:** [September 17, 2019, 12:32pm UTC](https://discuss.hail.is/t/typeerror-javapackage-object-is-not-callable/250/24 "2019-09-17T12:32:48Z")
For MacOS we’d definitely recommend the pip installation route – much easier. ---
**Author:** ![carleshf](https://yyz2.discourse-cdn.com/flex036/user_avatar/discuss.hail.is/carleshf/32/305_2.png) [@carleshf](https://discuss.hail.is/u/carleshf)\ **Post date:** [September 17, 2019, 2:18pm UTC](https://discuss.hail.is/t/typeerror-javapackage-object-is-not-callable/250/25 "2019-09-17T14:18:34Z")
I installed hail using pip as indicated in the documentation (aka. [https://hail.is/docs/0.2/getting\_started.html](https://hail.is/docs/0.2/getting_started.html)). ---
**Author:** ![tpoterba](https://yyz2.discourse-cdn.com/flex036/user_avatar/discuss.hail.is/tpoterba/32/61_2.png) [@tpoterba](https://discuss.hail.is/u/tpoterba)\ **Post date:** [September 17, 2019, 2:20pm UTC](https://discuss.hail.is/t/typeerror-javapackage-object-is-not-callable/250/26 "2019-09-17T14:20:06Z")
> [@carleshf](#): > > ```python > export HAIL_HOME=$(pip show hail | grep Location | awk -F' ' '{print $2 "/hail"}') > export PYTHONPATH="$HAIL_HOME:$SPARK_HOME/python:`echo $SPARK_HOME/python/lib/py4j*-src.zip`:$PYTHONPATH" > export SPARK_CLASSPATH=$HAIL_HOME/hail-all-spark.jar > > ``` can you try removing this bit and running again to see if you get the same error? ---
**Author:** ![danking](https://yyz2.discourse-cdn.com/flex036/user_avatar/discuss.hail.is/danking/32/43_2.png) [@danking](https://discuss.hail.is/u/danking)\ **Post date:** [September 17, 2019, 7:13pm UTC](https://discuss.hail.is/t/typeerror-javapackage-object-is-not-callable/250/27 "2019-09-17T19:13:20Z")
@carleshf Pip hail does not work with already created SparkContext. Can you use `PYSPARK_SUBMIT_ARGS` to specify your spark options and start hail as: ```auto import hail as hl hl.init() ``` ---
**Author:** ![masber](https://avatars.discourse-cdn.com/v4/letter/m/4da419/32.png) [@masber](https://discuss.hail.is/u/masber)\ **Post date:** [November 12, 2019, 7:03am UTC](https://discuss.hail.is/t/typeerror-javapackage-object-is-not-callable/250/28 "2019-11-12T07:03:44Z")
Hi, I am experiencing the same issue. I am trying to run hail in cluster mode. I built from source code against spark 2.3.2. ``` /usr/bin/spark-submit --version Welcome to ______ / __/__ ________ / /__ _\ \/ _ \/ _ `/ __/ '_/ / ___/ .__ /\_,_/_/ /_/\_\ version 2.3.2.3.1.0.0-78 /_/ Using Scala version 2.11.8, Java HotSpot(TM) 64-Bit Server VM, 1.8.0_112 Branch HEAD Compiled by user jenkins on 2018-12-06T12:26:34Z Revision 9b78096afddf26e2d73f0c078a112c9bf979ed53 Url git@github.com:hortonworks/spark2.git Type --help for more information. ``` This is how I built hail `sudo make install-on-cluster HAIL_COMPILE_NATIVES=1 SPARK_VERSION=2.3.2` This is how I installed hail in my python environment `sudo /share/ClusterShare/anaconda3/envs/python37/bin/pip install /share/apps/luffy/hail/hail/build/deploy` This is the testing code ``` import hail as hl hl.init() ``` And this is the error I am getting ``` Fail to execute line 3: hl.init() Traceback (most recent call last): File "/d1/hadoop/yarn/local/usercache/mansop/appcache/application_1572410115474_0103/container_e16_1572410115474_0103_01_000001/tmp/zeppelin_pyspark-2391960415257049015.py", line 380, in exec(code, _zcUserQueryNameSpace) File "", line 3, in File "", line 2, in init File "/share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages/hail/typecheck/check.py", line 585, in wrapper return __original_func(*args_, **kwargs_) File "/share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages/hail/context.py", line 280, in init _optimizer_iterations,_backend) File "", line 2, in __init__ File "/share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages/hail/typecheck/check.py", line 585, in wrapper return __original_func(*args_, **kwargs_) File "/share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages/hail/context.py", line 115, in __init__ min_block_size, branching_factor, tmp_dir, optimizer_iterations) TypeError: 'JavaPackage' object is not callable ``` I am stuck because I don’t understand the meaning of this error or how to keep troubleshooting. Could someone please share some thoughts? NOTE: I am using Zeppelin web notebook to run the test code thank you very much ---
**Author:** ![tpoterba](https://yyz2.discourse-cdn.com/flex036/user_avatar/discuss.hail.is/tpoterba/32/61_2.png) [@tpoterba](https://discuss.hail.is/u/tpoterba)\ **Post date:** [November 12, 2019, 10:55am UTC](https://discuss.hail.is/t/typeerror-javapackage-object-is-not-callable/250/29 "2019-11-12T10:55:40Z")
> This is how I built hail > `sudo make install-on-cluster HAIL_COMPILE_NATIVES=1 SPARK_VERSION=2.3.2` > This is how I installed hail in my python environment > `sudo /share/ClusterShare/anaconda3/envs/python37/bin/pip install /share/apps/luffy/hail/hail/build/deploy` You shouldn’t need an additional pip install – the `install-on-cluster` target includes a pip install: ```plaintext .PHONY: install-on-cluster install-on-cluster: $(WHEEL) sed '/^pyspark/d' python/requirements.txt | xargs $(PIP) install -U -$(PIP) uninstall -y hail $(PIP) install $(WHEEL) --no-deps ``` However, if it’s picking up the wrong pip that could be why. Try that make target again including the following env variable: ```python HAIL_PYTHON3="/share/ClusterShare/anaconda3/envs/python37/bin/python3" ``` ---
**Author:** ![masber](https://avatars.discourse-cdn.com/v4/letter/m/4da419/32.png) [@masber](https://discuss.hail.is/u/masber)\ **Post date:** [November 14, 2019, 4:53am UTC](https://discuss.hail.is/t/typeerror-javapackage-object-is-not-callable/250/31 "2019-11-14T04:53:44Z")
Hi, as suggested I uninstalled hail through pip, then deleted the local git repo and downloaded it again. Then I installed using the command below: ``` $ sudo make install-on-cluster HAIL_COMPILE_NATIVES=1 SPARK_VERSION=2.3.2 HAIL_PYTHON3="/share/ClusterShare/anaconda3/envs/python37/bin/python3" ... removing build/bdist.linux-x86_64/wheel sed '/^pyspark/d' python/requirements.txt | xargs /share/ClusterShare/anaconda3/envs/python37/bin/python3 -m pip install -U Requirement already up-to-date: aiohttp<3.7,>=3.6 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (3.6.2) Requirement already up-to-date: aiohttp_session<2.8,>=2.7 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (2.7.0) Requirement already up-to-date: asyncinit<0.3,>=0.2.4 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (0.2.4) Requirement already up-to-date: bokeh<1.3,>1.1 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (1.2.0) Requirement already up-to-date: decorator<5 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (4.4.1) Requirement already up-to-date: gcsfs==0.2.1 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (0.2.1) Requirement already up-to-date: hurry.filesize==0.9 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (0.9) Requirement already up-to-date: nest_asyncio in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (1.2.0) Requirement already up-to-date: numpy<2 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (1.17.4) Requirement already up-to-date: pandas<0.26,>0.24 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (0.25.3) Requirement already up-to-date: parsimonious<0.9 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (0.8.1) Requirement already up-to-date: PyJWT in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (1.7.1) Requirement already up-to-date: python-json-logger==0.1.11 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (0.1.11) Requirement already up-to-date: requests<2.21.1,>=2.21.0 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (2.21.0) Requirement already up-to-date: scipy<1.4,>1.2 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (1.3.2) Requirement already up-to-date: tabulate==0.8.3 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (0.8.3) Requirement already satisfied, skipping upgrade: async-timeout<4.0,>=3.0 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from aiohttp<3.7,>=3.6) (3.0.1) Requirement already satisfied, skipping upgrade: chardet<4.0,>=2.0 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from aiohttp<3.7,>=3.6) (3.0.4) Requirement already satisfied, skipping upgrade: yarl<2.0,>=1.0 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from aiohttp<3.7,>=3.6) (1.3.0) Requirement already satisfied, skipping upgrade: attrs>=17.3.0 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from aiohttp<3.7,>=3.6) (19.3.0) Requirement already satisfied, skipping upgrade: multidict<5.0,>=4.5 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from aiohttp<3.7,>=3.6) (4.5.2) Requirement already satisfied, skipping upgrade: Jinja2>=2.7 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from bokeh<1.3,>1.1) (2.10.3) Requirement already satisfied, skipping upgrade: tornado>=4.3 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from bokeh<1.3,>1.1) (6.0.3) Requirement already satisfied, skipping upgrade: six>=1.5.2 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from bokeh<1.3,>1.1) (1.13.0) Requirement already satisfied, skipping upgrade: pillow>=4.0 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from bokeh<1.3,>1.1) (6.2.1) Requirement already satisfied, skipping upgrade: python-dateutil>=2.1 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from bokeh<1.3,>1.1) (2.8.1) Requirement already satisfied, skipping upgrade: packaging>=16.8 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from bokeh<1.3,>1.1) (19.2) Requirement already satisfied, skipping upgrade: PyYAML>=3.10 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from bokeh<1.3,>1.1) (5.1.2) Requirement already satisfied, skipping upgrade: google-auth>=1.2 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from gcsfs==0.2.1) (1.7.0) Requirement already satisfied, skipping upgrade: google-auth-oauthlib in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from gcsfs==0.2.1) (0.4.1) Requirement already satisfied, skipping upgrade: setuptools in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from hurry.filesize==0.9) (41.6.0.post20191030) Requirement already satisfied, skipping upgrade: pytz>=2017.2 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from pandas<0.26,>0.24) (2019.3) Requirement already satisfied, skipping upgrade: urllib3<1.25,>=1.21.1 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from requests<2.21.1,>=2.21.0) (1.24.3) Requirement already satisfied, skipping upgrade: idna<2.9,>=2.5 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from requests<2.21.1,>=2.21.0) (2.8) Requirement already satisfied, skipping upgrade: certifi>=2017.4.17 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from requests<2.21.1,>=2.21.0) (2019.9.11) Requirement already satisfied, skipping upgrade: MarkupSafe>=0.23 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from Jinja2>=2.7->bokeh<1.3,>1.1) (1.1.1) Requirement already satisfied, skipping upgrade: pyparsing>=2.0.2 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from packaging>=16.8->bokeh<1.3,>1.1) (2.4.5) Requirement already satisfied, skipping upgrade: pyasn1-modules>=0.2.1 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from google-auth>=1.2->gcsfs==0.2.1) (0.2.7) Requirement already satisfied, skipping upgrade: rsa<4.1,>=3.1.4 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from google-auth>=1.2->gcsfs==0.2.1) (4.0) Requirement already satisfied, skipping upgrade: cachetools<3.2,>=2.0.0 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from google-auth>=1.2->gcsfs==0.2.1) (3.1.1) Requirement already satisfied, skipping upgrade: requests-oauthlib>=0.7.0 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from google-auth-oauthlib->gcsfs==0.2.1) (1.3.0) Requirement already satisfied, skipping upgrade: pyasn1<0.5.0,>=0.4.6 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from pyasn1-modules>=0.2.1->google-auth>=1.2->gcsfs==0.2.1) (0.4.7) Requirement already satisfied, skipping upgrade: oauthlib>=3.0.0 in /share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages (from requests-oauthlib>=0.7.0->google-auth-oauthlib->gcsfs==0.2.1) (3.1.0) /share/ClusterShare/anaconda3/envs/python37/bin/python3 -m pip uninstall -y hail WARNING: Skipping hail as it is not installed. /share/ClusterShare/anaconda3/envs/python37/bin/python3 -m pip install build/deploy/dist/hail-0.2.26-py3-none-any.whl --no-deps Processing ./build/deploy/dist/hail-0.2.26-py3-none-any.whl Installing collected packages: hail Successfully installed hail-0.2.26 ``` However, I am still unsuccessful in running hail test scripts: ``` Fail to execute line 3: hl.init() Traceback (most recent call last): File "/d1/hadoop/yarn/local/usercache/mansop/appcache/application_1572410115474_0110/container_e16_1572410115474_0110_01_000001/tmp/zeppelin_pyspark-4925461021365106531.py", line 380, in exec(code, _zcUserQueryNameSpace) File "", line 3, in File "", line 2, in init File "/share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages/hail/typecheck/check.py", line 585, in wrapper return __original_func(*args_, **kwargs_) File "/share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages/hail/context.py", line 280, in init _optimizer_iterations,_backend) File "", line 2, in __init__ File "/share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages/hail/typecheck/check.py", line 585, in wrapper return __original_func(*args_, **kwargs_) File "/share/ClusterShare/anaconda3/envs/python37/lib/python3.7/site-packages/hail/context.py", line 115, in __init__ min_block_size, branching_factor, tmp_dir, optimizer_iterations) TypeError: 'JavaPackage' object is not callable ``` Any thoughts? ---
**Author:** ![masber](https://avatars.discourse-cdn.com/v4/letter/m/4da419/32.png) [@masber](https://discuss.hail.is/u/masber)\ **Post date:** [November 15, 2019, 4:54am UTC](https://discuss.hail.is/t/typeerror-javapackage-object-is-not-callable/250/32 "2019-11-15T04:54:17Z")
ok, got it working after specifying spark where to find the jar files for hail thank you [Previous page](https://discuss.hail.is/t/typeerror-javapackage-object-is-not-callable/250.md?page=1)