fastlane: Fastlane doesn't seem to 'play nicely' with automatic code signing

New Issue Checklist

• [y ] Updated fastlane to the latest version
• [y ] I have read the Contribution Guidelines

Issue Description

I have a new Xcode 8 app with an iMessage plugin and shared app group entitlement. I selected the ‘automatically manage code signing’ box in xcode, and it looks like finally XCode does a good job. I can archive and upload to iTunes from XCode

Unfortunately, fastlane can no longer build an upload a binary for me. I have tried adding sigh to the flow and it seems happy enough - but doesn’t make iTunes happy

Complete output when running fastlane, including the stack trace and command used

...
[11:24:29]: Successfully exported and compressed dSYM file
[11:24:29]: Successfully exported and signed the ipa file:
[11:24:29]: /Users/rob/tmp/FastlaneBuild/Poop Pack.ipa
[11:24:29]: ------------------
[11:24:29]: --- Step: sigh ---
[11:24:29]: ------------------

+-------------------------------------+-------------------------------+
|                       Summary for sigh 1.11.1                       |
+-------------------------------------+-------------------------------+
| adhoc                               | false                         |
| development                         | false                         |
| skip_install                        | false                         |
| force                               | false                         |
| app_identifier                      | com.HobbyistSoftware.poop     |
| username                            | hobbyist@hobbyistsoftware.com |
| team_id                             | JHV5RC82C3                    |
| ignore_profiles_with_different_name | false                         |
| skip_fetch_profiles                 | false                         |
| skip_certificate_verification       | false                         |
+-------------------------------------+-------------------------------+
...

[11:25:55]: Going to upload updated app to iTunes Connect
[11:25:55]: This might take a few minutes. Please don't interrupt the script.
[11:26:35]: [Transporter Error Output]: ERROR ITMS-90161: "Invalid Provisioning Profile. The provisioning profile included in the bundle com.HobbyistSoftware.poop [Payload/Poop Pack.app] is invalid. [Missing code-signing certificate]. A Distribution Provisioning profile should be used when submitting apps to the App Store. For more information, visit the iOS Developer Portal."
[11:26:35]: Transporter transfer failed.
[11:26:35]: 
[11:26:35]: ERROR ITMS-90161: "Invalid Provisioning Profile. The provisioning profile included in the bundle com.HobbyistSoftware.poop [Payload/Poop Pack.app] is invalid. [Missing code-signing certificate]. A Distribution Provisioning profile should be used when submitting apps to the App Store. For more information, visit the iOS Developer Portal."
[11:26:35]: ERROR ITMS-90161: "Invalid Provisioning Profile. The provisioning profile included in the bundle com.HobbyistSoftware.poop [Payload/Poop Pack.app] is invalid. [Missing code-signing certificate]. A Distribution Provisioning profile should be used when submitting apps to the App Store. For more information, visit the iOS Developer Portal."
Return status of iTunes Transporter was 1: ERROR ITMS-90161: "Invalid Provisioning Profile. The provisioning profile included in the bundle com.HobbyistSoftware.poop [Payload/Poop Pack.app] is invalid. [Missing code-signing certificate]. A Distribution Provisioning profile should be used when submitting apps to the App Store. For more information, visit the iOS Developer Portal."
The call to the iTMSTransporter completed with a non-zero exit status: 1. This indicates a failure.
[11:26:35]: Variable Dump:
[11:26:35]: {:DEFAULT_PLATFORM=>:ios, :PLATFORM_NAME=>:ios, :LANE_NAME=>"ios release", :BUILD_NUMBER=>"22", :IPA_OUTPUT_PATH=>"/Users/rob/tmp/FastlaneBuild/Poop Pack.ipa", :DSYM_OUTPUT_PATH=>"/Users/rob/tmp/FastlaneBuild/Poop Pack.app.dSYM.zip", :XCODEBUILD_ARCHIVE=>"/Users/rob/Library/Developer/Xcode/Archives/2016-09-29/Poop Pack 2016-09-29 11.22.49.xcarchive", :SIGH_PROFILE_PATH=>"/Users/rob/Documents/Development/Mac/iPhone/PoopPack/AppStore_com.HobbyistSoftware.poop.mobileprovision", :SIGH_PROFILE_PATHS=>["/Users/rob/Documents/Development/Mac/iPhone/PoopPack/AppStore_com.HobbyistSoftware.poop.mobileprovision"], :SIGH_UDID=>"75fce413-4882-4aac-afa8-c28a2c3b77a7", :SIGH_PROFILE_TYPE=>"app-store"}
[11:26:35]: Could not upload binary to iTunes Connect. Check out the error above

+------+-------------------------------------+-------------+
|                     fastlane summary                     |
+------+-------------------------------------+-------------+
| Step | Action                              | Time (in s) |
+------+-------------------------------------+-------------+
| 1    | Verifying required fastlane version | 0           |
| 2    | default_platform                    | 0           |
| 3    | increment_build_number              | 0           |
| 4    | gym                                 | 102         |
| 5    | sigh                                | 11          |
| 6    | deliver                             | 115         |
+------+-------------------------------------+-------------+

[11:26:35]: fastlane finished with errors

Configuration Files

Please copy the complete content of your Fastfile and any other configuration files you use below:

Fastfile:

  desc "Deploy a new version to the App Store"
  lane :release do
    # match(type: "appstore")
    # snapshot
    increment_build_number
    gym # Build your app - more options available
    sigh
    deliver(
      skip_screenshots: true,
      skip_metadata: false,
      submit_for_review: false,
      automatic_release: true)
    # frameit
  end

Deliverfile

scheme "Poop"
output_directory "~/tmp/FastlaneBuild"
use_legacy_build_api true

Environment

fastlane version (run fastlane -v):

fastlane 1.104.0

Do you use bundler to execute fastlane (i.e. bundle exec fastlane)? no

Do you use a Ruby environment manager (e.g. chruby, rbenv, rvm)? rvm