Upgrade numpy to version 1.17.0

[cmnbroad]

Fixes #6480. Note that xbyak issue is unchanged and still exists with this upgrade.

This also contains a test for some of the key python packages to verify that they are resolved by Conda to the version of the package requested in the .yml file.

[cmnbroad]

@samuelklee @mwalker174 @lucidtronix Tests seem to pass with this (numpy 1.18 seems to cause runtime errors for CNN, but 1.17 seems to work ok), so this should at least get us up to a version that addresses the gcc issues in this forum post.

[samuelklee]

Great, thanks for adding this @cmnbroad! Let me manually check that there weren't any numerical changes in the gCNV WDL tests. @asmirnov239 and Jack might also want to test on some small, real data. Probably overkill, but just to be safe... We'll get back to you!

[samuelklee]

Did some numerical spot checks against master, looks like we're typically good to 10+ decimal places for the very small gCNV WDL test data. I'm fine with this going in without checking on real data first, but I'll tell Andrey and Jack to keep an eye out. Thanks again for updating!

[samuelklee]

Wait, actually, let me check some issues discussed in #5781 and #5764. Is the pip-installed version of numpy compiled against MKL? I didn't realize the change in #5781 was reverted in #6413 while I was on leave.

[gatk-bot]

Travis reported job failures from build 29532
Failures in the following jobs:

Test Type	JDK	Job ID	Logs
python	openjdk8	29532.5	logs

Noticed inconsistencies, trying to fix over in sl_reshape.

[samuelklee]

Reminder to myself to incorporate version checks from this branch over in #5026.

[samuelklee]

@cmnbroad I incorporated the version checks over in #5026. Going to go ahead and close this, thanks again for putting it together.