Description of problem: pkcon refresh fails to re-create other.sqlite data
Below is a diff: all other data is no longer there.

match at a[0] and b[0] of length 80
match at a[138] and b[80] of length 232
match at a[383] and b[312] of length 264
match at a[729] and b[576] of length 360
match at a[1171] and b[936] of length 167
match at a[1420] and b[1103] of length 291
match at a[1793] and b[1394] of length 446
match at a[2239] and b[1840] of length 0
Diff output:

  /var/cache/yum/x86_64/7.0/timedhosts
  
  /var/cache/yum/x86_64/7.0/beaker-harness:
- 13eb5c8ce42d16a2805d427bc527dc49a7726741-other.sqlite.bz2
  92731d8c2b2378371f025827116af78a4f359393-primary.sqlite.bz2
  cachecookie
  dd5a7e0840eac0c2d6c11fa233e3f197a02101df-filelists.sqlite.bz2
  gen
  packages
  repomd.xml
  
  /var/cache/yum/x86_64/7.0/beaker-tasks:
  cachecookie
  filelists.xml.gz
  gen
- other.xml.gz
  packages
  primary.xml.gz
  repomd.xml
  
  /var/cache/yum/x86_64/7.0/beaker-Workstation:
  81391ea7091d0a64cd6051a759f2fb2cd3d891fd7afc1765a37760e099fb55e6-primary.sqlite.bz2
  a4c82e883581e30e3ad94347ed5e228727e488fd12ce81b69b04d61c37ebad1d-filelists.sqlite.bz2
  cachecookie
- da710b64b307ea939c88f9b79bc549c75bbf75becf021adc08d098c425c66d90-other.sqlite.bz2
  eb0603af7611f2419793652deaaebd50c28be1785c2722b14ade02825a179b23-comps-Workstation.x86_64.xml.gz
  gen
  packages
  repomd.xml
  
  /var/cache/yum/x86_64/7.0/beaker-Workstation-debuginfo:
  a615cd981452b3660a065f66616db2c7c8d73b1aa461db617fbc5dc310603eeb-filelists.sqlite.bz2
  cachecookie
  ee0262ec5f6090bd1daad0acb60b8a4a88d50b710bff1377f99d6262f07f57e8-primary.sqlite.bz2
- ff2019180facb94e5c5f085d1874e8298eb7e5f0395a83515511d0539c1d5e77-other.sqlite.bz2
  gen
  packages
  repomd.xml
  
  /var/cache/yum/x86_64/7.0/beaker-Workstation-optional:
  31bb37bb9a4e6505294d928b13bc8892abe2a65ea7bc8cf439eab57101ab6848-filelists.sqlite.bz2
- 81dc76b75a5eabd497a3c616faa0dd9650ef5882429271f23807b0b68949e7e2-other.sqlite.bz2
  8739a51c1c8386443f68dea0bd2b42296eb7867a01e010c3a78fc399d8af867c-comps-Workstation-optional.x86_64.xml.gz
  9e667cec5cbd9388dc668163791c1206634233ba4b97ce5486bb28d63227b3d1-primary.sqlite.bz2
  cachecookie
  gen
  packages
  repomd.xml
  
  /var/cache/yum/x86_64/7.0/beaker-Workstation-optional-debuginfo:
- 5d84303299803b351b4cecb075aab59d569a98dbfb943517d0edaec73c3c310a-other.sqlite.bz2
  a3c8d15717989ff5f44ddd74c1c11964f2f6a0572972315e2d6e665ccf75760d-filelists.sqlite.bz2
  cachecookie
  d8919e5e592163759422b6dd3411ae7b47140bfeae02a8d1c79203e47bf5b5e0-primary.sqlite.bz2
  gen
  packages
  repomd.xml
  
  /var/cache/yum/x86_64/7.0/local:
  37425b05a99220f32da68f222c9b47a5b000e0e2b4725ddfa87894a7afbfb5b3-primary.sqlite.bz2
  72ebc523381a707a39b8853675cf74e5952437a63ff095832225dd94252626d3-filelists.sqlite.bz2
  cachecookie
  gen
  packages
  repomd.xml


Version-Release number of selected component (if applicable):
PackageKit-0.8.9-6.el7.x86_64

How reproducible:
always

Steps to Reproduce:
1.yum clean all
2.yum makecache (recreate to make sure cache data is there)
3. save off list of contents under /var/cache/yum/x86_64/6Server/
4. yum clean all
5. pkcon refresh
6. get another list of contents and compare.

Actual results:
other data is now missing

Expected results:
All data to be re-created

Additional info: