[BUG] Delayed processing with DirectoryWatcher

**Describe the bug**
`CloudTrailSourceStage` and `AppShieldSourceStage` have option (`--watch_directory=True`) to use `DirectoryWatcher` to listen for and process new files as they are added to a directory. There is a bug in the implementation where we see that the first batch of files does not get processed until the second yield from the generator function, [_generate_via_polling](https://github.com/nv-morpheus/Morpheus/blob/33a938c353b23196856ec300790367d057618be4/morpheus/utils/directory_watcher.py#L145) triggered by second batch of files. Therefore, we're always one step behind as new file(s) are added to directory.

**Steps/Code to reproduce bug**
1. Create a watch directory, e.g. `mkdir watch`

2. Start CloudTrail HAMMAH pipeline with just source and train stages with `watch_directory` and `input_glob` options: 
```
morpheus --log_level=DEBUG \
run --num_threads=1 --pipeline_batch_size=1024 --model_max_batch_size=1024 --use_cpp=False \
pipeline-ae --userid_filter=Account-123456789 \
from-cloudtrail --input_glob=watch/hammah-*.csv --max_files=200 --watch_directory=True \
train-ae --train_data_glob=models/datasets/training-data/hammah-*.csv --seed=42
```
3. When you see `====Pipeline Started====`, open a new terminal and go to your watch directory.

4. Copy first input file to watch directory.
```
cp <MORPHEUS_ROOT>/models/datasets/validation-data/hammah-role-g-validation-data.csv .
```
Notice that pipeline does not respond.

5. Copy second input file to watch directory.
```
cp <MORPHEUS_ROOT>/models/datasets/validation-data/hammah-user123-validation-data.csv .
```
Pipeline will respond with following:
```
CloudTrail loading complete. Total rows: 314. Timespan: 2 days 00:42:24
```
The 314 rows corresponds to first input file.

**Expected behavior**
We expect file(s) to be processed as they are added to directory (immediately after corresponding yield from generator function).

**Environment overview (please complete the following information)**
 - Environment location: Docker
 - Method of Morpheus install: Docker image build using `./docker/build_container_dev.sh`

**Environment details**
<details><summary>Click here to see environment details</summary><pre>

     **git***
     commit 33a938c353b23196856ec300790367d057618be4 (HEAD -> branch-22.06, origin/branch-22.06, origin/HEAD)
     Author: David Gardner <96306125+dagardner-nv@users.noreply.github.com>
     Date:   Mon Jun 13 14:09:26 2022 -0700

     Fix for CI check script (#158)

     + Use Github's rest API to determine base branch.
     + Only run check stage on pull requests

     Authors:
     - David Gardner (https://github.com/dagardner-nv)

     Approvers:
     - Michael Demoret (https://github.com/mdemoret-nv)
     - Christopher Harris (https://github.com/cwharris)

     URL: https://github.com/nv-morpheus/Morpheus/pull/158
     **git submodules***

     ***OS Information***
     DISTRIB_ID=Ubuntu
     DISTRIB_RELEASE=20.04
     DISTRIB_CODENAME=focal
     DISTRIB_DESCRIPTION="Ubuntu 20.04.4 LTS"
     NAME="Ubuntu"
     VERSION="20.04.4 LTS (Focal Fossa)"
     ID=ubuntu
     ID_LIKE=debian
     PRETTY_NAME="Ubuntu 20.04.4 LTS"
     VERSION_ID="20.04"
     HOME_URL="https://www.ubuntu.com/"
     SUPPORT_URL="https://help.ubuntu.com/"
     BUG_REPORT_URL="https://bugs.launchpad.net/ubuntu/"
     PRIVACY_POLICY_URL="https://www.ubuntu.com/legal/terms-and-policies/privacy-policy"
     VERSION_CODENAME=focal
     UBUNTU_CODENAME=focal
     Linux EFAJARDO-DT 5.4.0-113-generic #127~18.04.1-Ubuntu SMP Wed May 18 15:40:23 UTC 2022 x86_64 x86_64 x86_64 GNU/Linux

     ***GPU Information***
     Tue Jun 14 00:10:09 2022
     +-----------------------------------------------------------------------------+
     | NVIDIA-SMI 510.47.03    Driver Version: 510.47.03    CUDA Version: 11.6     |
     |-------------------------------+----------------------+----------------------+
     | GPU  Name        Persistence-M| Bus-Id        Disp.A | Volatile Uncorr. ECC |
     | Fan  Temp  Perf  Pwr:Usage/Cap|         Memory-Usage | GPU-Util  Compute M. |
     |                               |                      |               MIG M. |
     |===============================+======================+======================|
     |   0  Quadro RTX 8000     On   | 00000000:15:00.0 Off |                  Off |
     | 33%   39C    P8    32W / 260W |   2373MiB / 49152MiB |      0%      Default |
     |                               |                      |                  N/A |
     +-------------------------------+----------------------+----------------------+

     +-----------------------------------------------------------------------------+
     | Processes:                                                                  |
     |  GPU   GI   CI        PID   Type   Process name                  GPU Memory |
     |        ID   ID                                                   Usage      |
     |=============================================================================|
     |    0   N/A  N/A       951      C                                    1857MiB |
     |    0   N/A  N/A      1438      G                                       4MiB |
     |    0   N/A  N/A      3920      G                                       4MiB |
     |    0   N/A  N/A     16526      C                                     503MiB |
     +-----------------------------------------------------------------------------+

     ***CPU***
     Architecture:                    x86_64
     CPU op-mode(s):                  32-bit, 64-bit
     Byte Order:                      Little Endian
     Address sizes:                   46 bits physical, 48 bits virtual
     CPU(s):                          12
     On-line CPU(s) list:             0-11
     Thread(s) per core:              2
     Core(s) per socket:              6
     Socket(s):                       1
     NUMA node(s):                    1
     Vendor ID:                       GenuineIntel
     CPU family:                      6
     Model:                           85
     Model name:                      Intel(R) Xeon(R) Gold 6128 CPU @ 3.40GHz
     Stepping:                        4
     CPU MHz:                         1200.101
     CPU max MHz:                     3700.0000
     CPU min MHz:                     1200.0000
     BogoMIPS:                        6800.00
     Virtualization:                  VT-x
     L1d cache:                       192 KiB
     L1i cache:                       192 KiB
     L2 cache:                        6 MiB
     L3 cache:                        19.3 MiB
     NUMA node0 CPU(s):               0-11
     Vulnerability Itlb multihit:     KVM: Vulnerable
     Vulnerability L1tf:              Mitigation; PTE Inversion
     Vulnerability Mds:               Mitigation; Clear CPU buffers; SMT vulnerable
     Vulnerability Meltdown:          Mitigation; PTI
     Vulnerability Spec store bypass: Mitigation; Speculative Store Bypass disabled via prctl and seccomp
     Vulnerability Spectre v1:        Mitigation; usercopy/swapgs barriers and __user pointer sanitization
     Vulnerability Spectre v2:        Mitigation; Retpolines, IBPB conditional, IBRS_FW, STIBP conditional, RSB filling
     Vulnerability Srbds:             Not affected
     Vulnerability Tsx async abort:   Mitigation; Clear CPU buffers; SMT vulnerable
     Flags:                           fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm pbe syscall nx pdpe1gb rdtscp lm constant_tsc art arch_perfmon pebs bts rep_good nopl xtopology nonstop_tsc cpuid aperfmperf pni pclmulqdq dtes64 monitor ds_cpl vmx smx est tm2 ssse3 sdbg fma cx16 xtpr pdcm pcid dca sse4_1 sse4_2 x2apic movbe popcnt tsc_deadline_timer aes xsave avx f16c rdrand lahf_lm abm 3dnowprefetch cpuid_fault epb cat_l3 cdp_l3 invpcid_single pti intel_ppin ssbd mba ibrs ibpb stibp tpr_shadow vnmi flexpriority ept vpid ept_ad fsgsbase tsc_adjust bmi1 hle avx2 smep bmi2 erms invpcid rtm cqm mpx rdt_a avx512f avx512dq rdseed adx smap clflushopt clwb intel_pt avx512cd avx512bw avx512vl xsaveopt xsavec xgetbv1 xsaves cqm_llc cqm_occup_llc cqm_mbm_total cqm_mbm_local dtherm ida arat pln pts hwp hwp_act_window hwp_epp hwp_pkg_req pku ospke md_clear flush_l1d

     ***CMake***
     /opt/conda/envs/morpheus/bin/cmake
     cmake version 3.22.3

     CMake suite maintained and supported by Kitware (kitware.com/cmake).

     ***g++***
     /usr/bin/g++
     g++ (Ubuntu 9.4.0-1ubuntu1~20.04.1) 9.4.0
     Copyright (C) 2019 Free Software Foundation, Inc.
     This is free software; see the source for copying conditions.  There is NO
     warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.


     ***nvcc***
     /usr/local/cuda/bin/nvcc
     nvcc: NVIDIA (R) Cuda compiler driver
     Copyright (c) 2005-2021 NVIDIA Corporation
     Built on Mon_Oct_11_21:27:02_PDT_2021
     Cuda compilation tools, release 11.4, V11.4.152
     Build cuda_11.4.r11.4/compiler.30521435_0

     ***Python***
     /opt/conda/envs/morpheus/bin/python
     Python 3.8.13

     ***Environment Variables***
     PATH                            : /opt/conda/envs/morpheus/bin:/opt/conda/condabin:/opt/conda/bin:/usr/local/nvidia/bin:/usr/local/cuda/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
     LD_LIBRARY_PATH                 : /usr/local/nvidia/lib:/usr/local/nvidia/lib64
     NUMBAPRO_NVVM                   :
     NUMBAPRO_LIBDEVICE              :
     CONDA_PREFIX                    : /opt/conda/envs/morpheus
     PYTHON_PATH                     :

     ***conda packages***
     /opt/conda/condabin/conda
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     #
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     neo                       22.04.00        cuda_11.4_py38_ga156f61f_0    nvidia/label/dev
     networkx                  2.8.3                    pypi_0    pypi
     ninja                     1.10.2               h4bd325d_1    conda-forge
     nlohmann_json             3.9.1                h9c3ff4c_1    conda-forge
     nodejs                    17.4.0               h8ca31f7_0    conda-forge
     numba                     0.53.1           py38h8b71fd7_1    conda-forge
     numpy                     1.22.3                   pypi_0    pypi
     nvidia-pyindex            1.0.9                    pypi_0    pypi
     nvtx                      0.2.3            py38h497a2fe_1    conda-forge
     openssl                   1.1.1o               h166bdaf_0    conda-forge
     orc                       1.7.3                h1be678f_0    conda-forge
     ordered-set               4.1.0                    pypi_0    pypi
     packaging                 21.3               pyhd8ed1ab_0    conda-forge
     pandas                    1.3.5            py38h43a58ef_0    conda-forge
     pango                     1.50.7               hbd2fdc8_0    conda-forge
     parquet-cpp               1.5.1                         2    conda-forge
     pcre                      8.45                 h9c3ff4c_0    conda-forge
     pcre2                     10.37                h032f7d1_0    conda-forge
     perl                      5.32.1          2_h7f98852_perl5    conda-forge
     pillow                    9.1.1                    pypi_0    pypi
     pip                       22.1.2             pyhd8ed1ab_0    conda-forge
     pixman                    0.40.0               h36c2ea0_0    conda-forge
     pluggy                    1.0.0            py38h578d9bd_3    conda-forge
     prometheus_client         0.14.1             pyhd8ed1ab_0    conda-forge
     prometheus_flask_exporter 0.20.2             pyhd8ed1ab_0    conda-forge
     protobuf                  3.19.4           py38h709712a_0    conda-forge
     pthread-stubs             0.4               h36c2ea0_1001    conda-forge
     py                        1.11.0             pyh6c4a22f_0    conda-forge
     py-cpuinfo                8.0.0              pyhd8ed1ab_0    conda-forge
     pyarrow                   5.0.0           py38ha746e9d_25_cuda    conda-forge
     pybind11-stubgen          0.10.5             pyhd8ed1ab_0    conda-forge
     pycodestyle               2.8.0              pyhd8ed1ab_0    conda-forge
     pycparser                 2.21               pyhd8ed1ab_0    conda-forge
     pydot                     1.4.2            py38h578d9bd_1    conda-forge
     pyflakes                  2.4.0              pyhd8ed1ab_0    conda-forge
     pygments                  2.12.0             pyhd8ed1ab_0    conda-forge
     pyopenssl                 22.0.0             pyhd8ed1ab_0    conda-forge
     pyparsing                 3.0.9              pyhd8ed1ab_0    conda-forge
     pyrsistent                0.18.1           py38h0a891b7_1    conda-forge
     pysocks                   1.7.1            py38h578d9bd_5    conda-forge
     pytest                    7.1.2            py38h578d9bd_0    conda-forge
     pytest-benchmark          3.4.1              pyhd8ed1ab_0    conda-forge
     pytest-cov                3.0.0              pyhd8ed1ab_0    conda-forge
     python                    3.8.13          h582c2e5_0_cpython    conda-forge
     python-confluent-kafka    1.6.0            py38h497a2fe_1    conda-forge
     python-dateutil           2.8.2              pyhd8ed1ab_0    conda-forge
     python-dotenv             0.20.0             pyhd8ed1ab_0    conda-forge
     python-graphviz           0.20               pyhaef67bd_0    conda-forge
     python-rapidjson          1.6                      pypi_0    pypi
     python_abi                3.8                      2_cp38    conda-forge
     pytz                      2022.1             pyhd8ed1ab_0    conda-forge
     pyyaml                    6.0              py38h0a891b7_4    conda-forge
     querystring_parser        1.2.4                      py_0    conda-forge
     rapidjson                 1.1.0             he1b5a44_1002    conda-forge
     re2                       2022.02.01           h9c3ff4c_0    conda-forge
     readline                  8.1                  h46c0cb4_0    conda-forge
     requests                  2.27.1             pyhd8ed1ab_0    conda-forge
     rhash                     1.4.1                h7f98852_0    conda-forge
     rmm                       21.10.01        cuda_11.4_py38_gc54767f_0    rapidsai
     s2n                       1.0.10               h9b69904_0    conda-forge
     scikit-build              0.13.1             pyhca92ed8_0    conda-forge
     scikit-learn              0.23.1                   pypi_0    pypi
     scipy                     1.8.1            py38h1ee437e_0    conda-forge
     setuptools                59.8.0           py38h578d9bd_1    conda-forge
     six                       1.16.0             pyh6c4a22f_0    conda-forge
     smmap                     3.0.5              pyh44b312d_0    conda-forge
     snappy                    1.1.9                hbd366e4_1    conda-forge
     snowballstemmer           2.2.0              pyhd8ed1ab_0    conda-forge
     spdlog                    1.8.5                h4bd325d_1    conda-forge
     sphinx                    4.5.0              pyh6c4a22f_0    conda-forge
     sphinx_rtd_theme          1.0.0              pyhd8ed1ab_0    conda-forge
     sphinxcontrib-applehelp   1.0.2                      py_0    conda-forge
     sphinxcontrib-devhelp     1.0.2                      py_0    conda-forge
     sphinxcontrib-htmlhelp    2.0.0              pyhd8ed1ab_0    conda-forge
     sphinxcontrib-jsmath      1.0.1                      py_0    conda-forge
     sphinxcontrib-qthelp      1.0.3                      py_0    conda-forge
     sphinxcontrib-serializinghtml 1.1.5              pyhd8ed1ab_2    conda-forge
     sqlalchemy                1.4.37           py38h0a891b7_0    conda-forge
     sqlite                    3.38.5               h4ff8645_0    conda-forge
     sqlparse                  0.4.2              pyhd8ed1ab_0    conda-forge
     sysroot_linux-64          2.17                h4a8ded7_13    conda-forge
     tabulate                  0.8.9              pyhd8ed1ab_0    conda-forge
     tenacity                  8.0.1              pyhd8ed1ab_0    conda-forge
     tensorboardx              2.5.1                    pypi_0    pypi
     texttable                 1.6.4              pyhd8ed1ab_0    conda-forge
     threadpoolctl             3.1.0                    pypi_0    pypi
     tk                        8.6.12               h27826a3_0    conda-forge
     toml                      0.10.2             pyhd8ed1ab_0    conda-forge
     tomli                     2.0.1              pyhd8ed1ab_0    conda-forge
     torch                     1.10.2+cu113             pypi_0    pypi
     tqdm                      4.64.0             pyhd8ed1ab_0    conda-forge
     tritonclient              2.17.0                   pypi_0    pypi
     typing-extensions         4.2.0                hd8ed1ab_1    conda-forge
     typing-utils              0.1.0                    pypi_0    pypi
     typing_extensions         4.2.0              pyha770c72_1    conda-forge
     ucx                       1.12.0+gd367332      cuda11.2_0    rapidsai
     urllib3                   1.26.9             pyhd8ed1ab_0    conda-forge
     watchdog                  2.1.8                    pypi_0    pypi
     websocket-client          1.3.2              pyhd8ed1ab_0    conda-forge
     werkzeug                  2.1.2              pyhd8ed1ab_1    conda-forge
     wheel                     0.37.1             pyhd8ed1ab_0    conda-forge
     xorg-kbproto              1.0.7             h7f98852_1002    conda-forge
     xorg-libice               1.0.10               h7f98852_0    conda-forge
     xorg-libsm                1.2.3             hd9c2040_1000    conda-forge
     xorg-libx11               1.7.2                h7f98852_0    conda-forge
     xorg-libxau               1.0.9                h7f98852_0    conda-forge
     xorg-libxdmcp             1.1.3                h7f98852_0    conda-forge
     xorg-libxext              1.3.4                h7f98852_1    conda-forge
     xorg-libxrender           0.9.10            h7f98852_1003    conda-forge
     xorg-renderproto          0.11.1            h7f98852_1002    conda-forge
     xorg-xextproto            7.3.0             h7f98852_1002    conda-forge
     xorg-xproto               7.0.31            h7f98852_1007    conda-forge
     xtensor                   0.24.2               h924138e_0    conda-forge
     xtl                       0.7.4                h4bd325d_0    conda-forge
     xz                        5.2.5                h516909a_1    conda-forge
     yaml                      0.2.5                h7f98852_2    conda-forge
     zipp                      3.8.0              pyhd8ed1ab_0    conda-forge
     zlib                      1.2.12               h166bdaf_0    conda-forge
     zope-event                4.5.0                    pypi_0    pypi
     zope-interface            5.4.0                    pypi_0    pypi
     zstd                      1.5.2                h8a70e8d_1    conda-forge

</pre></details>


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[BUG] Delayed processing with DirectoryWatcher #161

efajardo-nv
openedon Jun 14, 2022

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[BUG] Delayed processing with DirectoryWatcher #161

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efajardo-nvopenedon Jun 14, 2022

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