checksums: Remove or fix up unfetchable or unverifiable md5 versions

This commit either removes remaining md5 checksums, or it replaces them
with sha256 checksums verified by fetching over https.

var/spack/repos/builtin/packages/adlbx/package.py

@@ -17,7 +17,6 @@ class Adlbx(AutotoolsPackage):
     version('master', branch='master')
     version('0.9.2', sha256='524902d648001b689a98492402d754a607b8c1d0734699154063c1a4f3410d4a')
     version('0.9.1', sha256='8913493fe0c097ff13c721ab057514e5bdb55f6318d4e3512692ab739c3190b3')
-    version('0.8.0', md5='34ade59ce3be5bc296955231d47a27dd')
 
     depends_on('exmcutils@master', when='@master')
     depends_on('exmcutils@:0.5.3', when='@:0.8.0')

var/spack/repos/builtin/packages/armadillo/package.py

@@ -16,11 +16,6 @@ class Armadillo(CMakePackage):
 
     version('8.100.1', sha256='54773f7d828bd3885c598f90122b530ded65d9b195c9034e082baea737cd138d')
     version('7.950.1', sha256='a32da32a0ea420b8397a53e4b40ed279c1a5fc791dd492a2ced81ffb14ad0d1b')
-    # NOTE: v7.900.1 download url seems broken is no v7.950.1?
-    version('7.900.1', md5='5ef71763bd429a3d481499878351f3be')
-    version('7.500.0', md5='7d316fdf3c3c7ea92b64704180ae315d')
-    version('7.200.2', md5='b21585372d67a8876117fd515d8cf0a2')
-    version('7.200.1', md5='ed86d6df0058979e107502e1fe3e469e')
 
     variant('hdf5', default=False, description='Include HDF5 support')
 

var/spack/repos/builtin/packages/bazel/package.py

@@ -30,11 +30,6 @@ class Bazel(Package):
     version('0.9.0', sha256='efb28fed4ffcfaee653e0657f6500fc4cbac61e32104f4208da385676e76312a')
     version('0.4.5', sha256='2b737be42678900470ae9e48c975ac5b2296d9ae23c007bf118350dbe7c0552b')
     version('0.4.4', sha256='d52a21dda271ae645711ce99c70cf44c5d3a809138e656bbff00998827548ebb')
-    version('0.3.1', md5='5c959467484a7fc7dd2e5e4a1e8e866b')
-    version('0.3.0', md5='33a2cb457d28e1bee9282134769b9283')
-    version('0.2.3', md5='393a491d690e43caaba88005efe6da91')
-    version('0.2.2b', md5='75081804f073cbd194da1a07b16cba5f')
-    version('0.2.2', md5='644bc4ea7f429d835e74f255dc1054e6')
 
     depends_on('java@8:', type=('build', 'link', 'run'))
     depends_on('zip')

var/spack/repos/builtin/packages/bcl2fastq2/package.py

@@ -21,11 +21,6 @@ class Bcl2fastq2(Package):
 
     version('2.20.0.422', sha256='8dd3044767d044aa4ce46de0de562b111c44e5b8b7348e04e665eb1b4f101fe3')
     version('2.19.1.403', sha256='cf13580f2c1ebcc3642b4d98a02ad01e41a44e644db7d31730f9767b25521806')
-    version('2.18.0.12', md5='fbe06492117f65609c41be0c27e3215c')
-    # 2.17.1.14 is no longer distributed.  If you have a copy of the
-    # source tarball, you can drop it into a local mirror w/ the name
-    # mirror/bcl2fastq2/bcl2fastq2-2.17.1.14.zip and go from there.
-    version('2.17.1.14', md5='7426226c6db095862e636b95c38608d3')
 
     conflicts('platform=darwin',
               msg='malloc.h/etc requirements break build on macs')

var/spack/repos/builtin/packages/beast1/package.py

@@ -13,7 +13,6 @@ class Beast1(Package):
     homepage = "http://beast.community/"
 
     version('1.10.4', sha256='be652c4d55953f7c6c7a9d3eb3de203c77dc380e81ad81cfe0492408990c36a8')
-    version('1.10.0', md5='bcf2f2c074319360ec8a2ebad57d2e57')
     version('1.8.4', sha256='c14e93976008463108aefa34ecc23287ab70703caccf4962e36e295207120d78')
 
     variant('beagle', default=True, description='Build with libbeagle support')

var/spack/repos/builtin/packages/braker/package.py

@@ -17,7 +17,6 @@ class Braker(Package):
     list_url = "http://bioinf.uni-greifswald.de/augustus/binaries/old"
 
     version('2.1.4', sha256='d48af5649cc879343046f9ddf180fe2c709b5810e0b78cf314bf298514d31d52')
-    version('2.1.0', md5='5f974abcceb9f96a11668fa20a6f6a56')
     version('1.11', sha256='cb2d9abe1720ed58753d362eee4af3791007efc617754804882d31f9fe2eab00',
             url='http://bioinf.uni-greifswald.de/augustus/binaries/old/BRAKER1_v1.11.tar.gz')
 

var/spack/repos/builtin/packages/branson/package.py

@@ -18,10 +18,7 @@ class Branson(CMakePackage):
     tags = ['proxy-app']
 
     version('develop', branch='develop')
-    # Version 1.01 is actually deprecated and older than any of the 0.8 series.
+
-    # However, its entry is left here to reflect older versions of this
-    # spackage.
-    version('1.01', md5='cf7095a887a8dd7d417267615bd0452a')
     version('0.82', sha256='7d83d41d0c7ab9c1c906a902165af31182da4604dd0b69aec28d709fe4d7a6ec',
             preferred=True)
     version('0.81', sha256='493f720904791f06b49ff48c17a681532c6a4d9fa59636522cf3f9700e77efe4')

var/spack/repos/builtin/packages/busco/package.py

@@ -16,7 +16,7 @@ class Busco(PythonPackage):
 
     # TODO: check the installation procedure for version 3.0.2
     # and uncomment the following line
-    # version('3.0.2', md5='31d80042bb7e96422843fa43d0acbd21')
+    # version('3.0.2', sha256='dbea093315b766b0f7c4fe3cafbbdf51ade79ec84bde04f1f437b48333200f34')
 
     # There is no tag for version 3.0.1
     version('3.0.1', commit='078252e00399550d7b0e8941cd4d986c8e868a83')

var/spack/repos/builtin/packages/bwa/package.py

@@ -13,7 +13,6 @@ class Bwa(Package):
     url      = "https://github.com/lh3/bwa/releases/download/v0.7.15/bwa-0.7.15.tar.bz2"
 
     version('0.7.17', sha256='de1b4d4e745c0b7fc3e107b5155a51ac063011d33a5d82696331ecf4bed8d0fd')
-    version('0.7.16a', md5='c5115c9a5ea0406848500e4b23a7708c')
     version('0.7.15', sha256='2f56afefa49acc9bf45f12edb58e412565086cc20be098b8bf15ec07de8c0515')
     version('0.7.13', sha256='559b3c63266e5d5351f7665268263dbb9592f3c1c4569e7a4a75a15f17f0aedc')
     version('0.7.12', sha256='285f55b7fa1f9e873eda9a9b06752378a799ecdecbc886bbd9ba238045bf62e0',

var/spack/repos/builtin/packages/candle-benchmarks/package.py

@@ -15,7 +15,6 @@ class CandleBenchmarks(Package):
     tags = ['proxy-app', 'ecp-proxy-app']
 
     version('0.1', sha256='767f74f43ee3a5d4e0f26750f2a96b8433e25a9cd4f2d29938ac8acf263ab58d')
-    version('0.0', md5='6eced30dc15374bc9f90a86d0396e470')
 
     variant('mpi', default=True, description='Build with MPI support')
 

var/spack/repos/builtin/packages/cmocka/package.py

@@ -13,7 +13,6 @@ class Cmocka(CMakePackage):
 
     version('1.1.1', sha256='f02ef48a7039aa77191d525c5b1aee3f13286b77a13615d11bc1148753fc0389')
     version('1.1.0', sha256='e960d3bf1be618634a4b924f18bb4d6f20a825c109a8ad6d1af03913ba421330')
-    version('1.0.1', md5='ed861e501a21a92b2af63e466df2015e')
 
     depends_on('cmake@2.6.0:', type='build')
 

var/spack/repos/builtin/packages/cub/package.py

@@ -14,8 +14,6 @@ class Cub(Package):
     url      = "https://github.com/NVlabs/cub/archive/1.6.4.zip"
 
     version('1.7.1', sha256='50b8777b83093fdfdab429a61fccdbfbbb991b3bbc08385118e5ad58e8f62e1d')
-    version('1.6.4', md5='924fc12c0efb17264c3ad2d611ed1c51')
-    version('1.4.1', md5='74a36eb84e5b5f0bf54aa3df39f660b2')
 
     def install(self, spec, prefix):
         mkdirp(prefix.include)

var/spack/repos/builtin/packages/esmf/package.py

@@ -18,7 +18,6 @@ class Esmf(MakefilePackage):
     url      = "http://www.earthsystemmodeling.org/esmf_releases/public/ESMF_7_1_0r/esmf_7_1_0r_src.tar.gz"
 
     version('7.1.0r', sha256='ae9a5edb8d40ae97a35cbd4bd00b77061f995c77c43d36334dbb95c18b00a889')
-    version('7.0.1', md5='d3316ea79b032b8fb0cd40e5868a0261')
 
     variant('mpi',     default=True,  description='Build with MPI support')
     variant('lapack',  default=True,  description='Build with LAPACK support')

var/spack/repos/builtin/packages/flit/package.py

@@ -17,10 +17,6 @@ class Flit(MakefilePackage):
     url      = "https://github.com/PRUNERS/FLiT/archive/v2.0-alpha.1.tar.gz"
 
     version('2.0-alpha.1', sha256='8de2bd400acf0f513d69f3dbf588e8984dfb18b8ccaaf684391811a0582f694b')
-    # FIXME: fix install and build to handle the old version, which is not
-    #        installable
-    # version('1.0.0',       md5='27763c89b044c5e3cfe62dd319a36a2b')
-    conflicts("@:1.999", msg="Only can build version 2.0 and up")
 
     # Add dependencies
     depends_on('python@3:', type='run')

var/spack/repos/builtin/packages/font-util/package.py

@@ -26,7 +26,7 @@ class FontUtil(AutotoolsPackage):
 
     font_baseurl = 'https://www.x.org/archive/individual/font/'
     fonts = []
-    # name, version, md5
+    # name, version, sha256
     fonts_resource = [
         ['encodings', '1.0.4', '55861d9cf456bd717a3d30a3193402c02174ed3c0dcee828798165fe307ee324'],
         ['font-alias', '1.0.3', '63087cb61d17bfc9cd6f4f9359f63a3b1dd83300a31a42fd93dca084724c6afb'],
@@ -68,7 +68,7 @@ class FontUtil(AutotoolsPackage):
     for f_r in fonts_resource:
         f = f_r[0]
         resource(name=f, url=font_baseurl + f + '-' + f_r[1] + '.tar.gz',
-                 md5=f_r[2], destination=f, when='fonts=' + f)
+                 sha256=f_r[2], destination=f, when='fonts=' + f)
         fonts.append(f)
 
     variant('fonts',

var/spack/repos/builtin/packages/funhpc/package.py

@@ -16,12 +16,6 @@ class Funhpc(CMakePackage):
 
     version('develop', branch='master')
     version('1.3.0', sha256='140e60f55a307f21117bd43fa16db35d60c0df5ef37e17a4da1cb3f5da5e29c1')
-    version('1.2.0', md5='ba2bbeea3091e999b6b85eaeb1b67a83')
-    version('1.1.1', md5='7b9ef638b02fffe35b75517e8eeff580')
-    version('1.1.0', md5='897bd968c42cd4f14f86fcf67da70444')
-    version('1.0.0', md5='f34e71ccd5548b42672e692c913ba5ee')
-    version('0.1.1', md5='f0248710f2de88ed2a595ad40d99997c')
-    version('0.1.0', md5='00f7dabc08ed1ab77858785ce0809f50')
 
     variant('pic', default=True,
             description="Produce position-independent code")

var/spack/repos/builtin/packages/genemark-et/package.py

@@ -21,7 +21,6 @@ class GenemarkEt(Package):
 
     version('4.46', sha256='856b0b6c7cbd12835e140ff04ecd9124376348efd65f76bfd8b8e08c1834eac0')
     version('4.38', sha256='cee3bd73d331be44159eac15469560d0b07ffa2c98ac764c37219e1f3b7d3146')
-    version('4.33', '4ab7d7d3277a685dfb49e11bc5b493c3')
 
     depends_on('perl', type=('build', 'run'))
     depends_on('perl-yaml', type=('build', 'run'))

var/spack/repos/builtin/packages/gmp/package.py

@@ -17,7 +17,6 @@ class Gmp(AutotoolsPackage):
     version('6.1.1',  sha256='a8109865f2893f1373b0a8ed5ff7429de8db696fc451b1036bd7bdf95bbeffd6')
     version('6.1.0',  sha256='498449a994efeba527885c10405993427995d3f86b8768d8cdf8d9dd7c6b73e8')
     version('6.0.0a', sha256='7f8e9a804b9c6d07164cf754207be838ece1219425d64e28cfa3e70d5c759aaf')
-    version('6.0.0',  md5='6ef5869ae735db9995619135bd856b84')
     version('5.1.3', sha256='752079520b4690531171d0f4532e40f08600215feefede70b24fabdc6f1ab160')
     # Old version needed for a binary package in ghc-bootstrap
     version('4.3.2',  sha256='936162c0312886c21581002b79932829aa048cfaf9937c6265aeaa14f1cd1775')

var/spack/repos/builtin/packages/hpx/package.py

@@ -18,8 +18,6 @@ class Hpx(CMakePackage, CudaPackage):
     version('1.2.0', sha256='20942314bd90064d9775f63b0e58a8ea146af5260a4c84d0854f9f968077c170')
     version('1.1.0', sha256='1f28bbe58d8f0da600d60c3a74a644d75ac777b20a018a5c1c6030a470e8a1c9')
 
-    version('1.0.0', md5='4983e7c6402417ec794d40343e36e417', url='http://stellar.cct.lsu.edu/files/hpx_1.0.0')
-
     variant('cxxstd',
             default='17',
             values=('98', '11', '14', '17'),

var/spack/repos/builtin/packages/hub/package.py

@@ -15,7 +15,6 @@ class Hub(Package):
     git      = "https://github.com/github/hub.git"
 
     version('head', branch='master')
-    version('2.2.3', md5='6675992ddd16d186eac7ba4484d57f5b')
     version('2.2.2', sha256='610572ee903aea1fa8622c16ab7ddef2bd1bfec9f4854447ab8e0fbdbe6a0cae')
     version('2.2.1', sha256='9350aba6a8e3da9d26b7258a4020bf84491af69595f7484f922d75fc8b86dc10')
     version('2.2.0', sha256='2da1351197eb5696c207f22c69a5422af052d74277b73d0b8661efb9ec1d0eb1')

var/spack/repos/builtin/packages/hydrogen/package.py

@@ -20,7 +20,6 @@ class Hydrogen(CMakePackage):
     version('1.1.0', sha256='b4c12913acd01c72d31f4522266bfeb8df1d4d3b4aef02e07ccbc9a477894e71')
     version('1.0.1', sha256='27cf76e1ef1d58bd8f9b1e34081a14a682b7ff082fb5d1da56713e5e0040e528')
     version('1.0', sha256='d8a97de3133f2c6b6bb4b80d32b4a4cc25eb25e0df4f0cec0f8cb19bf34ece98')
-    version('0.99', md5='b678433ab1d498da47acf3dc5e056c23')
 
     variant('shared', default=True,
             description='Enables the build of shared libraries')

var/spack/repos/builtin/packages/ilmbase/package.py

@@ -16,8 +16,6 @@ class Ilmbase(AutotoolsPackage):
 
     version('2.2.0', sha256='ecf815b60695555c1fbc73679e84c7c9902f4e8faa6e8000d2f905b8b86cedc7',
             url='http://download.savannah.nongnu.org/releases/openexr/ilmbase-2.2.0.tar.gz')
-    version('2.1.0', md5='af1115f4d759c574ce84efcde9845d29',
-            url='http://download.savannah.nongnu.org/releases/openexr/ilmbase-2.1.0.tar.gz')
     version('2.0.1', sha256='19b03975fea4461f2eff91f5df138b301b3ea9709eccbda98447f372bf09735f',
             url='http://download.savannah.nongnu.org/releases/openexr/ilmbase-2.0.1.tar.gz')
     version('1.0.2', sha256='2e5cda799ffdfca9b1a16bb120d49c74a39af1457ef22f968918c6200ba62e44',

var/spack/repos/builtin/packages/intel-ipp/package.py

@@ -23,8 +23,6 @@ class IntelIpp(IntelPackage):
             url='http://registrationcenter-download.intel.com/akdlm/irc_nas/tec/13006/l_ipp_2018.3.222.tgz')
     version('2018.2.199', sha256='55cb5c910b2c1e2bd798163fb5019b992b1259a0692e328bb9054778cf01562b',
             url='http://registrationcenter-download.intel.com/akdlm/irc_nas/tec/12726/l_ipp_2018.2.199.tgz')
-    version('2018.1.163', md5='183d4888f3d91f632b617fdd401f04ed',
-            url='http://registrationcenter-download.intel.com/akdlm/irc_nas/tec/12414/l_ipp_2018.1.163.tgz')
     version('2018.0.128', sha256='da568ceec1b7acbcc8f666b73d4092788b037b1b03c0436974b82155056ed166',
             url='http://registrationcenter-download.intel.com/akdlm/irc_nas/tec/12071/l_ipp_2018.0.128.tgz')
     version('2017.3.196', sha256='50d49a1000a88a8a58bd610466e90ae28d07a70993a78cbbf85d44d27c4232b6',

var/spack/repos/builtin/packages/jdk/package.py

@@ -50,18 +50,10 @@ class Jdk(Package):
             url='http://download.oracle.com/otn-pub/java/jdk/10.0.1+10/fb4372174a714e6b8c52526dc134031e/jdk-10.0.1_linux-x64_bin.tar.gz')
     version('1.8.0_202', sha256='9a5c32411a6a06e22b69c495b7975034409fa1652d03aeb8eb5b6f59fd4594e0', curl_options=curl_options,
             url='https://download.oracle.com/otn-pub/java/jdk/8u202-b08/1961070e4c9b4e26a04e7f5a083f551e/jdk-8u202-linux-x64.tar.gz')
-    version('1.8.0_181-b13', md5='ef599e322eee42f6769991dd3e3b1a31', curl_options=curl_options,
-            url='http://download.oracle.com/otn-pub/java/jdk/8u181-b13/96a7b8442fe848ef90c96a2fad6ed6d1/jdk-8u181-linux-x64.tar.gz')
-    version('1.8.0_172-b11', md5='eda2945e8c02b84adbf78f46c37b71c1', curl_options=curl_options,
-            url='http://download.oracle.com/otn-pub/java/jdk/8u172-b11/a58eab1ec242421181065cdc37240b08/jdk-8u172-linux-x64.tar.gz')
     version('1.8.0_141-b15', sha256='041d5218fbea6cd7e81c8c15e51d0d32911573af2ed69e066787a8dc8a39ba4f', curl_options=curl_options,
             url='http://download.oracle.com/otn-pub/java/jdk/8u141-b15/336fa29ff2bb4ef291e347e091f7f4a7/jdk-8u141-linux-x64.tar.gz')
     version('1.8.0_131-b11', sha256='62b215bdfb48bace523723cdbb2157c665e6a25429c73828a32f00e587301236', curl_options=curl_options,
             url='http://download.oracle.com/otn-pub/java/jdk/8u131-b11/d54c1d3a095b4ff2b6607d096fa80163/jdk-8u131-linux-x64.tar.gz')
-    version('1.8.0_92-b14', md5='65a1cc17ea362453a6e0eb4f13be76e4', curl_options=curl_options)
-    version('1.8.0_73-b02', md5='1b0120970aa8bc182606a16bf848a686', curl_options=curl_options)
-    version('1.8.0_66-b17', md5='88f31f3d642c3287134297b8c10e61bf', curl_options=curl_options)
-    version('1.7.0_80-b0', md5='6152f8a7561acf795ca4701daa10a965', curl_options=curl_options)
 
     provides('java')
     provides('java@12', when='@12.0:12.999')

var/spack/repos/builtin/packages/julia/package.py

@@ -25,7 +25,7 @@ class Julia(Package):
     version('0.5.1', sha256='533b6427a1b01bd38ea0601f58a32d15bf403f491b8415e9ce4305b8bc83bb21')
     version('0.5.0', sha256='732478536b6dccecbf56e541eef0aed04de0e6d63ae631b136e033dda2e418a9')
     version('release-0.4', branch='release-0.4')
-    version('0.4.7', md5='75a7a7dd882b7840829d8f165e9b9078')
+    version('0.4.7', sha256='d658d5bd5fb79b19f3c01cadb9aba8622ca8a12a4b687acc7d99c21413623570')
     version('0.4.6', sha256='4c23c9fc72398014bd39327c2f7efd3a301884567d4cb2a89105c984d4d633ba')
     version('0.4.5', sha256='cbf361c23a77e7647040e8070371691083e92aa93c8a318afcc495ad1c3a71d9')
     version('0.4.3', sha256='2b9df25a8f58df8e43038ec30bae195dfb160abdf925f3fa193b59d40e4113c5')

var/spack/repos/builtin/packages/latte/package.py

@@ -18,9 +18,6 @@ class Latte(CMakePackage):
 
     version('develop', branch='master')
     version('1.2.1', sha256='a21dda5ebdcefa56e9ff7296d74ef03f89c200d2e110a02af7a84612668bf702')
-    version('1.2.0', md5='b9bf8f84a0e0cf7b0e278a1bc7751b3d')
-    version('1.1.1', md5='ab11867ba6235189681cf6e50a50cc50')
-    version('1.0.1', md5='d0b99edbcf7a19abe0a68a192d6f6234')
 
     variant('mpi', default=True,
             description='Build with mpi')

var/spack/repos/builtin/packages/libconfig/package.py

@@ -14,11 +14,7 @@ class Libconfig(AutotoolsPackage):
 
     force_autoreconf = True
 
-    version('1.7.1',
+    version('1.7.1', sha256='d288e6ae817f4ef78df43cdb2647f768dc97899ee82fcc41f857e8eb9fd7fbdb')
-        sha256='d288e6ae817f4ef78df43cdb2647f768dc97899ee82fcc41f857e8eb9fd7fbdb')    
-    # there is currently a build error with version 1.6, see:
-    # https://github.com/hyperrealm/libconfig/issues/47
-    # version('1.6', md5='2ccd24b6a2ee39f7ff8a3badfafb6539')
     version('1.5',   sha256='cae5c02361d8a9b2bb26946c64f089d2e5e599972f386203fbc48975c0d885c8')
 
     depends_on('m4', type=('build'))

var/spack/repos/builtin/packages/libelf/package.py

@@ -22,7 +22,6 @@ class Libelf(AutotoolsPackage):
     url      = "https://fossies.org/linux/misc/old/libelf-0.8.13.tar.gz"
 
     version('0.8.13', sha256='591a9b4ec81c1f2042a97aa60564e0cb79d041c52faa7416acb38bc95bd2c76d')
-    # version('0.8.12', md5='e21f8273d9f5f6d43a59878dc274fec7')
 
     provides('elf@0')
 

var/spack/repos/builtin/packages/libepoxy/package.py

@@ -14,7 +14,6 @@ class Libepoxy(AutotoolsPackage):
     list_url = "https://github.com/anholt/libepoxy/releases"
 
     version('1.4.3', sha256='0b808a06c9685a62fca34b680abb8bc7fb2fda074478e329b063c1f872b826f6')
-    version('1.3.1', md5='96f6620a9b005a503e7b44b0b528287d')
 
     depends_on('pkgconfig', type='build')
     depends_on('meson')

var/spack/repos/builtin/packages/libffi/package.py

@@ -15,9 +15,6 @@ class Libffi(AutotoolsPackage):
 
     version('3.2.1', sha256='d06ebb8e1d9a22d19e38d63fdb83954253f39bedc5d46232a05645685722ca37',
             url="https://www.mirrorservice.org/sites/sourceware.org/pub/libffi/libffi-3.2.1.tar.gz")
-    # version('3.1', md5='f5898b29bbfd70502831a212d9249d10',url =
-    # "ftp://sourceware.org/pub/libffi/libffi-3.1.tar.gz") # Has a bug
-    # $(lib64) instead of ${lib64} in libffi.pc
 
     @property
     def headers(self):

var/spack/repos/builtin/packages/libgd/package.py

@@ -22,8 +22,6 @@ class Libgd(AutotoolsPackage):
     url      = 'https://github.com/libgd/libgd/releases/download/gd-2.2.4/libgd-2.2.4.tar.gz'
 
     version('2.2.4', sha256='487a650aa614217ed08ab1bd1aa5d282f9d379cfd95c756aed0b43406381be65')
-    version('2.2.3', md5='a67bd15fa33d4aac0a1c7904aed19f49')
-    version('2.1.1', md5='e91a1a99903e460e7ba00a794e72cc1e')
 
     # Build dependencies
     depends_on('autoconf', type='build')

var/spack/repos/builtin/packages/libgit2/package.py

@@ -17,7 +17,6 @@ class Libgit2(CMakePackage):
     url      = "https://github.com/libgit2/libgit2/archive/v0.24.2.tar.gz"
 
     version('0.26.0', sha256='6a62393e0ceb37d02fe0d5707713f504e7acac9006ef33da1e88960bd78b6eac')
-    version('0.24.2', md5='735661b5b73e3c120d13e2bae21e49b3')
 
     depends_on('cmake@2.8:', type='build')
     depends_on('libssh2')

var/spack/repos/builtin/packages/libgpuarray/package.py

@@ -15,8 +15,6 @@ class Libgpuarray(CMakePackage):
     url      = "https://github.com/Theano/libgpuarray/archive/v0.6.1.tar.gz"
 
     version('0.7.5', sha256='39c4d2e743848be43c8819c736e089ae51b11aa446cc6ee05af945c2dfd63420')
-    version('0.7.4', md5='19f57cd381175162048c8154f5251546')
-    version('0.7.3', md5='cb44aeb8482330974abdb36b0a477e5d')
     version('0.7.2', sha256='ef11ee6f8d62d53831277fd3dcab662aa770a5b5de2d30fe3018c4af959204da')
     version('0.7.1', sha256='4d0f9dd63b0595a8c04d8cee91b2619847c033b011c71d776caa784322382ed6')
     version('0.7.0', sha256='afe7907435dcbf78b3ea9b9f6c97e5a0d4a219a7170f5025ca0db1c289bb88df')

var/spack/repos/builtin/packages/libnl/package.py

@@ -14,7 +14,6 @@ class Libnl(AutotoolsPackage):
     url      = "https://github.com/thom311/libnl/releases/download/libnl3_3_0/libnl-3.3.0.tar.gz"
 
     version('3.3.0', sha256='705468b5ae4cd1eb099d2d1c476d6a3abe519bc2810becf12fb1e32de1e074e4')
-    version('3.2.25', md5='03f74d0cd5037cadc8cdfa313bbd195c')
 
     depends_on('bison', type='build')
     depends_on('flex', type='build')

var/spack/repos/builtin/packages/libsodium/package.py

@@ -17,9 +17,6 @@ class Libsodium(AutotoolsPackage):
     version('1.0.16', sha256='eeadc7e1e1bcef09680fb4837d448fbdf57224978f865ac1c16745868fbd0533')
     version('1.0.15', sha256='fb6a9e879a2f674592e4328c5d9f79f082405ee4bb05cb6e679b90afe9e178f4')
     version('1.0.13', sha256='9c13accb1a9e59ab3affde0e60ef9a2149ed4d6e8f99c93c7a5b97499ee323fd')
-    version('1.0.12', md5='c308e3faa724b630b86cc0aaf887a5d4')
-    version('1.0.11', md5='b58928d035064b2a46fb564937b83540')
-    version('1.0.10', md5='ea89dcbbda0b2b6ff6a1c476231870dd')
     version('1.0.3', sha256='cbcfc63cc90c05d18a20f229a62c7e7054a73731d0aa858c0517152c549b1288')
     version('1.0.2', sha256='961d8f10047f545ae658bcc73b8ab0bf2c312ac945968dd579d87c768e5baa19')
     version('1.0.1', sha256='c3090887a4ef9e2d63af1c1e77f5d5a0656fadb5105ebb9fb66a302210cb3af5')

var/spack/repos/builtin/packages/libtiff/package.py

@@ -17,7 +17,6 @@ class Libtiff(AutotoolsPackage):
     version('4.0.8', sha256='59d7a5a8ccd92059913f246877db95a2918e6c04fb9d43fd74e5c3390dac2910')
     version('4.0.7', sha256='9f43a2cfb9589e5cecaa66e16bf87f814c945f22df7ba600d63aac4632c4f019')
     version('4.0.6', sha256='4d57a50907b510e3049a4bba0d7888930fdfc16ce49f1bf693e5b6247370d68c')
-    version('4.0.3', md5='051c1068e6a0627f461948c365290410')
     version('3.9.7', sha256='f5d64dd4ce61c55f5e9f6dc3920fbe5a41e02c2e607da7117a35eb5c320cef6a')
 
     depends_on('jpeg')

var/spack/repos/builtin/packages/lmod/package.py

@@ -37,7 +37,6 @@ class Lmod(AutotoolsPackage):
     version('6.4.5',  sha256='741744a2837c9d92fceeccfebdc8e07ce4f4b7e56f67b214d317955bbd8786b7')
     version('6.4.1',  sha256='a260b4e42269a80b517c066ba8484658362ea095e80767a2376bbe33d9b070a5')
     version('6.3.7',  sha256='55ddb52cbdc0e2e389b3405229336df9aabfa582c874f5df2559ea264e2ee4ae')
-    version('6.0.1',  md5='91abf52fe5033bd419ffe2842ebe7af9')
 
     depends_on('lua@5.1:')
     depends_on('lua-luaposix', type=('build', 'run'))

var/spack/repos/builtin/packages/log4cplus/package.py

@@ -16,4 +16,3 @@ class Log4cplus(CMakePackage):
 
     version('2.0.1', sha256='43baa7dec3db1ecc97dd9ecf3b50220439d2c7041d15860c36aa1d48dcf480b5')
     version('1.2.1', sha256='ada80be050033d7636beb894eb54de5575ceca95a5572e9437b0fc4ed7d877c4')
-    version('1.2.0', md5='e250f0f431c0723f8b625323e7b6465d')

var/spack/repos/builtin/packages/macsio/package.py

@@ -18,7 +18,6 @@ class Macsio(CMakePackage):
     version('develop', branch='master')
 
     version('1.1', sha256='a86249b0f10647c0b631773db69568388094605ec1a0af149d9e61e95e6961ec')
-    version('1.0', md5='90e8e00ea84af2a47bee387ad331dbde')
 
     variant('mpi', default=True, description="Build MPI plugin")
     variant('silo', default=True, description="Build with SILO plugin")

var/spack/repos/builtin/packages/mpifileutils/package.py

@@ -23,10 +23,6 @@ class Mpifileutils(Package):
     version('develop', branch='master')
     version('0.9.1', sha256='15a22450f86b15e7dc4730950b880fda3ef6f59ac82af0b268674d272aa61c69')
     version('0.9', sha256='1b8250af01aae91c985ca5d61521bfaa4564e46efa15cee65cd0f82cf5a2bcfb')
-    version('0.8.1', md5='acbd5b5c15919a67392509614bb7871e')
-    version('0.8', md5='1082600e7ac4e6b2c13d91bbec40cffb')
-    version('0.7', md5='c081f7f72c4521dddccdcf9e087c5a2b')
-    version('0.6', md5='620bcc4966907481f1b1a965b28fc9bf')
 
     conflicts('platform=darwin')
 

var/spack/repos/builtin/packages/muparser/package.py

@@ -12,8 +12,6 @@ class Muparser(Package):
     url      = "https://github.com/beltoforion/muparser/archive/v2.2.5.tar.gz"
 
     version('2.2.6.1', sha256='d2562853d972b6ddb07af47ce8a1cdeeb8bb3fa9e8da308746de391db67897b3')
-    # 2.2.6 presents itself as 2.2.5, don't add it to Spack
-    # version('2.2.6', md5='f197b2815ca0422b2091788a78f2dc8a')
     version('2.2.5', sha256='0666ef55da72c3e356ca85b6a0084d56b05dd740c3c21d26d372085aa2c6e708')
 
     # Replace std::auto_ptr by std::unique_ptr

var/spack/repos/builtin/packages/mvapich2/package.py

@@ -22,7 +22,6 @@ class Mvapich2(AutotoolsPackage):
     version('2.3a', sha256='7f0bc94265de9f66af567a263b1be6ef01755f7f6aedd25303d640cc4d8b1cff')
     version('2.2', sha256='791a6fc2b23de63b430b3e598bf05b1b25b82ba8bf7e0622fc81ba593b3bb131')
     version('2.1', sha256='49f3225ad17d2f3b6b127236a0abdc979ca8a3efb8d47ab4b6cd4f5252d05d29')
-    version('2.0', md5='9fbb68a4111a8b6338e476dc657388b4')
 
     provides('mpi')
     provides('mpi@:3.0')

var/spack/repos/builtin/packages/mxml/package.py

@@ -18,9 +18,6 @@ class Mxml(AutotoolsPackage):
     version('2.10', sha256='267ff58b64ddc767170d71dab0c729c06f45e1df9a9b6f75180b564f09767891')
     version('2.9', sha256='cded54653c584b24c4a78a7fa1b3b4377d49ac4f451ddf170ebbc8161d85ff92')
     version('2.8', sha256='0c9369f91a718d82e32cb007c0bd41b6642822c9a0ffe1d10eccbdea9a3011d5')
-    version('2.7', md5='76f2ae49bf0f5745d5cb5d9507774dc9')
-    version('2.6', md5='68977789ae64985dddbd1a1a1652642e')
-    version('2.5', md5='f706377fba630b39fa02fd63642b17e5')
 
     def url_for_version(self, version):
         if version <= Version('2.7'):

var/spack/repos/builtin/packages/mxnet/package.py

@@ -15,12 +15,6 @@ class Mxnet(MakefilePackage):
 
     version('1.3.0', sha256='c00d6fbb2947144ce36c835308e603f002c1eb90a9f4c5a62f4d398154eed4d2',
             url='https://github.com/apache/incubator-mxnet/releases/download/1.3.0/apache-mxnet-src-1.3.0-incubating.tar.gz')
-    version('0.10.0.post2',  md5='7819d511cf4a6efad681e6662fa966e4',
-            url="https://github.com/apache/incubator-mxnet/archive/0.10.0.post2.tar.gz")
-    version('0.10.0.post1',  md5='16d540f407cd22285555b3ab22040032',
-            url="https://github.com/apache/incubator-mxnet/archive/v0.10.0.post1.tar.gz")
-    version('0.10.0', md5='2d0c83c33eda729932d620cca3078826',
-            url="https://github.com/apache/incubator-mxnet/archive/v0.10.0.tar.gz")
 
     variant('cuda', default=False, description='Enable CUDA support')
     variant('opencv', default=True, description='Enable OpenCV support')

var/spack/repos/builtin/packages/nag/package.py

@@ -11,9 +11,9 @@ class Nag(Package):
     """The NAG Fortran Compiler."""
     homepage = "http://www.nag.com/nagware/np.asp"
 
-    version('6.2', md5='8b119cc3296969bbd68b781f625de272')
+    version('6.2', sha256='e22f70f52949c4eb5526229c13920c924af5254d07a584cf54fefecd130fd29c')
     version('6.1', sha256='32580e0004e6798abf1fa52f0070281b28abeb0da2387530a4cc41218e813c7c')
-    version('6.0', md5='3fa1e7f7b51ef8a23e6c687cdcad9f96')
+    version('6.0', sha256='d5a326777a20303626b121da58522a122fcb1e3b4f2fcd657d9848e7b39fe7f8')
 
     # Licensing
     license_required = True
@@ -25,7 +25,7 @@ class Nag(Package):
     def url_for_version(self, version):
         # TODO: url and checksum are architecture dependent
         # TODO: We currently only support x86_64
-        url = 'http://www.nag.com/downloads/impl/npl6a{0}na_amd64.tgz'
+        url = 'https://www.nag.com/downloads/impl/npl6a{0}na_amd64.tgz'
         return url.format(version.joined)
 
     def install(self, spec, prefix):

var/spack/repos/builtin/packages/netcdf-cxx4/package.py

@@ -13,12 +13,10 @@ class NetcdfCxx4(AutotoolsPackage):
     url      = "https://www.github.com/unidata/netcdf-cxx4/tarball/v4.3.0"
 
     version('4.3.0', sha256='f4766d5a19c91093be80ddd2eaf1fbbd8d203854cc69fc73d2ad293b099ac799')
-    version('4.2.1', md5='d019853802092cf686254aaba165fc81')
 
     # Usually the configure automatically inserts the pic flags, but we can
     # force its usage with this variant.
-    variant('pic', default=True,
+    variant('pic', default=True, description='Produce position-independent code (for shared libs)')
-            description='Produce position-independent code (for shared libs)')
 
     depends_on('netcdf')
 

var/spack/repos/builtin/packages/nwchem/package.py

@@ -20,8 +20,6 @@ class Nwchem(Package):
             url='https://github.com/nwchemgit/nwchem/releases/download/6.8.1-release/nwchem-6.8.1-release.revision-v6.8-133-ge032219-srconly.2018-06-14.tar.bz2')
     version('6.8', sha256='8401d9f4cce2f653a38639df61260b06be580ff0e1b8d77ed3262da159b372a6',
             url='https://github.com/nwchemgit/nwchem/archive/v6.8-release.tar.gz')
-    version('6.6', md5='c581001c004ea5e5dfacb783385825e3',
-            url='http://www.nwchem-sw.org/images/Nwchem-6.6.revision27746-src.2015-10-20.tar.gz')
 
     depends_on('blas')
     depends_on('lapack')

var/spack/repos/builtin/packages/ont-albacore/package.py

@@ -17,9 +17,7 @@ class OntAlbacore(Package):
     url = "https://mirror.oxfordnanoportal.com/software/analysis/ont_albacore-2.3.1-cp35-cp35m-manylinux1_x86_64.whl"
 
     version('2.3.1', sha256='dc1af11b0f38b26d071e5389c2b4595c496319c987401754e1853de42467a7d1', expand=False)
-    version('2.1.2', md5='1e60cfb95628829f2a61a85247f1b6af', expand=False)
+
-    version('1.2.4', md5='559640bec4693af12e4d923e8d77adf6', expand=False)
-    version('1.1.0', md5='fab4502ea1bad99d813aa2629e03e83d', expand=False)
     extends('python')
 
     depends_on('python@3.5.0:3.5.999', type=('build', 'run'))

var/spack/repos/builtin/packages/pexsi/package.py

@@ -26,7 +26,7 @@ class Pexsi(MakefilePackage):
     homepage = 'https://math.berkeley.edu/~linlin/pexsi/index.html'
     url = 'https://math.berkeley.edu/~linlin/pexsi/download/pexsi_v0.9.0.tar.gz'
 
-    # version('1.0', md5='4600b03e235935fe623acf500df0edfa')
+    # version('1.0', sha256='1574c66fd69ff2a37c6250d65c4df43b57c79822b49bd65662582a0cd5d82f54')
     version('0.10.2', sha256='8714c71b76542e096211b537a9cb1ffb2c28f53eea4f5a92f94cc1ca1e7b499f')
     version('0.9.2', sha256='9dc0fb66fc52c2b68e8fe485bbf4354ab0d9a548a4eaf7211eb4174c51bcf1de')
     version('0.9.0', sha256='e5efe0c129013392cdac3234e37f1f4fea641c139b1fbea47618b4b839d05029')

var/spack/repos/builtin/packages/phylip/package.py

@@ -14,7 +14,6 @@ class Phylip(Package):
     url      = "http://evolution.gs.washington.edu/phylip/download/phylip-3.697.tar.gz"
 
     version('3.697', sha256='9a26d8b08b8afea7f708509ef41df484003101eaf4beceb5cf7851eb940510c1')
-    version('3.696', md5='dbe5abc26f6089ead3dba41c2db526ee')
 
     def install(self, spec, prefix):
         with working_dir('src'):

var/spack/repos/builtin/packages/pism/package.py

@@ -17,7 +17,6 @@ class Pism(CMakePackage):
 
     version('develop', branch='dev')
     version('1.1.4', sha256='8ccb867af3b37e8d103351dadc1d7e77512e64379519fe8a2592668deb27bc44')
-    version('0.7.3', md5='7cfb034100d99d5c313c4ac06b7f17b6')
     version('0.7.x', branch='stable0.7')
     version('icebin', branch='efischer/dev')
 

var/spack/repos/builtin/packages/planck-likelihood/package.py

@@ -55,7 +55,7 @@ class PlanckLikelihood(Package):
     resource(
         name='plik-unbinned',
         url="http://irsa.ipac.caltech.edu/data/Planck/release_2/software/COM_Likelihood_Data-extra-plik-unbinned.R2.00.tar.gz",
-        md5='c5869aa6b6581b6863d2a6e0ffd3826c',
+        sha256='69cdfee40d63a8b60b1f715d4e276d76693ec1a6f1b2658abac2b8d7dff4fa44',
         destination='.',
         when='+plik-unbinned')
 

var/spack/repos/builtin/packages/prank/package.py

@@ -13,7 +13,6 @@ class Prank(Package):
     url      = "http://wasabiapp.org/download/prank/prank.source.150803.tgz"
 
     version('170427', sha256='623eb5e9b5cb0be1f49c3bf715e5fabceb1059b21168437264bdcd5c587a8859')
-    version('150803', md5='71ac2659e91c385c96473712c0a23e8a')
 
     depends_on('mafft')
     depends_on('exonerate')

var/spack/repos/builtin/packages/protobuf/package.py

@@ -29,8 +29,6 @@ class Protobuf(CMakePackage):
     version('3.2.0', sha256='a839d3f1519ff9d68ab908de5a0f269650ef1fc501c10f6eefd4cae51d29b86f')
     version('3.1.0', sha256='fb2a314f4be897491bb2446697be693d489af645cb0e165a85e7e64e07eb134d')
     version('3.0.2', sha256='a0a265bcc9d4e98c87416e59c33afc37cede9fb277292523739417e449b18c1e')
-    # does not build with CMake:
-    # version('2.5.0', md5='9c21577a03adc1879aba5b52d06e25cf')
 
     variant('shared', default=True,
             description='Enables the build of shared libraries')

var/spack/repos/builtin/packages/py-astroid/package.py

@@ -14,7 +14,7 @@ class PyAstroid(PythonPackage):
     url      = "https://github.com/PyCQA/astroid/archive/astroid-1.4.5.tar.gz"
 
     version('2.2.0', sha256='7e289d0aa4a537b4aa798bd609fdf745de0f3c37e6b67642ed328e1482421a6d')
-    # version('1.5.3', md5='6f65e4ea8290ec032320460905afb828') # has broken unit tests
+    # version('1.5.3', sha256='6f65e4ea8290ec032320460905afb828') # has broken unit tests
     version('1.4.5', sha256='28d8f5b898087ecf86fd66ca0934e5c0e51fc0beb5972cfc4e0c11080e0cb6ab')
     version('1.4.4', sha256='a521dfdbb728ec36c4cc7a9287285e2c30233fb19faffcec8d080d1b2b2e7d1e')
     version('1.4.3', sha256='381a8b1a7e3861b0e7f5f25fb8d70fccf5d6b19ed81fcf76f569a5c5affe1bcc')

var/spack/repos/builtin/packages/py-certifi/package.py

@@ -19,6 +19,5 @@ class PyCertifi(PythonPackage):
     version('2019.6.16', sha256='945e3ba63a0b9f577b1395204e13c3a231f9bc0223888be653286534e5873695')
     version('2017.4.17', sha256='f7527ebf7461582ce95f7a9e03dd141ce810d40590834f4ec20cddd54234c10a')
     version('2017.1.23', sha256='81877fb7ac126e9215dfb15bfef7115fdc30e798e0013065158eed0707fd99ce')
-    version('2016.02.28', sha1='5ccfc23bd5e931863f0b01ef3e9d2dbd3bef0e1b')
 
     depends_on('py-setuptools', type='build')

var/spack/repos/builtin/packages/py-cython/package.py

@@ -29,7 +29,6 @@ class PyCython(PythonPackage):
     version('0.25.2', sha256='f141d1f9c27a07b5a93f7dc5339472067e2d7140d1c5a9e20112a5665ca60306')
     version('0.23.5', sha256='0ae5a5451a190e03ee36922c4189ca2c88d1df40a89b4f224bc842d388a0d1b6')
     version('0.23.4', sha256='fec42fecee35d6cc02887f1eef4e4952c97402ed2800bfe41bbd9ed1a0730d8e')
-    version('0.22',   md5='1ae25add4ef7b63ee9b4af697300d6b6')
     version('0.21.2', sha256='b01af23102143515e6138a4d5e185c2cfa588e0df61c0827de4257bac3393679')
 
     depends_on('python@:2', type=('build', 'run'), when='@:0.22')

var/spack/repos/builtin/packages/py-espressopp/package.py

@@ -20,8 +20,6 @@ class PyEspressopp(CMakePackage):
     version('develop', branch='master')
     version('2.0.2',   sha256='8cf4525bca06426379f5b9fbb8cc2603f559d28a2e74d1d7694df963b8f3dc6c')
     version('1.9.5',   sha256='8093f1a226f9fee8fb37c401767439a29ff3656dede3a44b4160169fc90d4d91')
-    version('1.9.4.1', md5='0da74a6d4e1bfa6a2a24fca354245a4f')
-    version('1.9.4',   md5='f2a27993a83547ad014335006eea74ea')
 
     variant('ug', default=False, description='Build user guide')
     variant('pdf', default=False, description='Build user guide in pdf format')

var/spack/repos/builtin/packages/py-git-review/package.py

@@ -14,10 +14,6 @@ class PyGitReview(PythonPackage):
 
     version('1.26.0', sha256='487c3c1d7cc81d02b303a1245e432579f683695c827ad454685b3953f70f0b94')
     version('1.25.0', sha256='087e0a7dc2415796a9f21c484a6f652c5410e6ba4562c36291c5399f9395a11d')
-    version('1.24',   md5='145116fe58a3487c3ad1bf55538fd741')
-    version('1.23',   md5='b0023ad8c037ab710da81412194c6a3a')
-    version('1.22',   md5='e889df5838c059362e5e0d411bde9c48')
-    version('1.21',   md5='eee88bdef1aa37a55cc8becd48c6aba9')
 
     extends('python')
 

var/spack/repos/builtin/packages/py-maestrowf/package.py

@@ -16,7 +16,6 @@ class PyMaestrowf(PythonPackage):
     maintainers = ['FrankD412']
 
     version('1.1.4', sha256='2cb0fa6f6281d8618ac79217ea5f4fd8cb24955c4315e873657f96b815f171d5')
-    version('1.1.3', md5='0299e4ae3ec8b8c0296df0efaa8b517f')
     version('1.1.2', sha256='ebb45bff54625435bc9f2462e1bdc3b5bdc4d943378c53e7810c11836794c5e0')
     version('1.1.1', sha256='a476ad4b40846d7b7f9540d6413df1b42eb655735e8d3c6c07e0baa68e20a8bb')
     version('1.1.0', sha256='14e701d6a10ab758215aab6b6809817d9a39416a4f477cd2f2551883fc68477b')

var/spack/repos/builtin/packages/py-openpyxl/package.py

@@ -13,7 +13,6 @@ class PyOpenpyxl(PythonPackage):
     url      = "https://pypi.io/packages/source/o/openpyxl/openpyxl-2.4.5.tar.gz"
 
     version('2.4.5', sha256='78c331e819fb0a63a1339d452ba0b575d1a31f09fdcce793a31bec7e9ef4ef21')
-    version('2.2.0-b1', md5='eeefabe384f6e53166c8c2e6abe5d11b')
 
     depends_on('python@2.6:2.8,3.0:3.1,3.3:')
 

var/spack/repos/builtin/packages/py-pygpu/package.py

@@ -13,8 +13,6 @@ class PyPygpu(PythonPackage):
     url      = "https://github.com/Theano/libgpuarray/archive/v0.6.1.tar.gz"
 
     version('0.7.5', sha256='39c4d2e743848be43c8819c736e089ae51b11aa446cc6ee05af945c2dfd63420')
-    version('0.7.4', md5='19f57cd381175162048c8154f5251546')
-    version('0.7.3', md5='cb44aeb8482330974abdb36b0a477e5d')
     version('0.7.2', sha256='ef11ee6f8d62d53831277fd3dcab662aa770a5b5de2d30fe3018c4af959204da')
     version('0.7.1', sha256='4d0f9dd63b0595a8c04d8cee91b2619847c033b011c71d776caa784322382ed6')
     version('0.7.0', sha256='afe7907435dcbf78b3ea9b9f6c97e5a0d4a219a7170f5025ca0db1c289bb88df')

var/spack/repos/builtin/packages/py-pylint/package.py

@@ -13,7 +13,7 @@ class PyPylint(PythonPackage):
     url      = "https://pypi.io/packages/source/p/pylint/pylint-1.6.5.tar.gz"
 
     version('2.3.0', sha256='ee80c7af4f127b2a480d83010c9f0e97beb8eaa652b78c2837d3ed30b12e1182')
-    # version('1.7.2', md5='27ee752cdcfacb05bf4940947e6b35c6') # see dependencies
+    # version('1.7.2', sha256='ea6afb93a9ed810cf52ff3838eb3a15e2bf6a81b80de0eaede1ce442caa5ca69') # see dependencies
     version('1.6.5', sha256='a673984a8dd78e4a8b8cfdee5359a1309d833cf38405008f4a249994a8456719')
     version('1.4.3', sha256='1dce8c143a5aa15e0638887c2b395e2e823223c63ebaf8d5f432a99e44b29f60')
     version('1.4.1', sha256='3e383060edd432cbbd0e8bd686f5facfe918047ffe1bb401ab5897cb6ee0f030')

var/spack/repos/builtin/packages/py-pysam/package.py

@@ -16,9 +16,6 @@ class PyPysam(PythonPackage):
     version('0.15.2', sha256='8cb3dd70f0d825086ac059ec2445ebd2ec5f14af73e7f1f4bd358966aaee5ed3')
     version('0.15.1', sha256='12221285af17e32b8f3fed033f90c6177a798afe41420eb5c3352d4e18ee12ed')
     version('0.14.1', sha256='d2bb40cd083c1357768e4683377f03471d160cfe8421136630bfa47f5adb3219')
-    version('0.13', md5='a9b502dd1a7e6403e35e6972211688a2')
-    version('0.11.2.2', md5='56230cd5f55b503845915b76c22d620a')
-    version('0.7.7', md5='eaf9f37cbccc5e2708754d045909c1a0')
 
     depends_on('py-setuptools', type='build')
     depends_on('py-cython@0.21:', type='build')

var/spack/repos/builtin/packages/py-pyside/package.py

@@ -23,9 +23,6 @@ class PyPyside(PythonPackage):
     # and show little interest in certifying PySide 1.2.4 for Python.
     version('1.2.4', sha256='1421bc1bf612c396070de9e1ffe227c07c1f3129278bc7d30c754b5146be2433')  # rpath problems
 
-    # This is not available from pypi
-    # version('1.2.3', md5='fa5d5438b045ede36104bba25a6ccc10')
-
     # v1.2.2 does not work with Python3
     version('1.2.2', sha256='53129fd85e133ef630144c0598d25c451eab72019cdcb1012f2aec773a3f25be', preferred=True)
 

var/spack/repos/builtin/packages/py-pytz/package.py

@@ -15,7 +15,6 @@ class PyPytz(PythonPackage):
     import_modules = ['pytz']
 
     version('2018.4', sha256='c06425302f2cf668f1bba7a0a03f3c1d34d4ebeef2c72003da308b3947c7f749')
-    version('2017.2',   md5='f89bde8a811c8a1a5bac17eaaa94383c')
     version('2016.10',  sha256='9a43e20aa537cfad8fe7a1715165c91cb4a6935d40947f2d070e4c80f2dcd22b')
     version('2016.6.1', sha256='6f57732f0f8849817e9853eb9d50d85d1ebb1404f702dbc44ee627c642a486ca')
     version('2014.10',  sha256='a94138b638907491f473c875e8c95203a6a02efef52b6562be302e435016f4f3')

var/spack/repos/builtin/packages/py-setuptools/package.py

@@ -33,7 +33,6 @@ class PySetuptools(PythonPackage):
     version('25.2.0', sha256='b2757ddac2c41173140b111e246d200768f6dd314110e1e40661d0ecf9b4d6a6')
     version('20.7.0', sha256='505cdf282c5f6e3a056e79f0244b8945f3632257bba8469386c6b9b396400233')
     version('20.6.7', sha256='d20152ee6337323d3b6d95cd733fb719d6b4f3fbc40f61f7a48e5a1bb96478b2')
-    version('20.5',   md5='fadc1e1123ddbe31006e5e43e927362b')
     version('19.2',   sha256='f90ed8eb70b14b0594ba74e9de4ffca040c0ec8ee505cbf3570499467859f71a')
     version('18.1',   sha256='ad52a9d5b3a6f39c2a1c2deb96cc4f6aff29d6511bdea2994322c40b60c9c36a')
     version('16.0',   sha256='aa86255dee2c4a0056509750008007667c29306b7a6c13801468515b2c672845')

var/spack/repos/builtin/packages/py-sip/package.py

@@ -18,8 +18,6 @@ class PySip(Package):
     version('develop', hg=hg)  # wasn't actually able to clone this
     version('4.19.18', sha256='c0bd863800ed9b15dcad477c4017cdb73fa805c25908b0240564add74d697e1e')
     version('4.19.13', sha256='e353a7056599bf5fbd5d3ff9842a6ab2ea3cf4e0304a0f925ec5862907c0d15e')
-    version('4.16.7', md5='32abc003980599d33ffd789734de4c36')
-    version('4.16.5', md5='6d01ea966a53e4c7ae5c5e48c40e49e5')
 
     variant('module', default='sip', description='Name of private SIP module',
             values=str, multi=False)

var/spack/repos/builtin/packages/py-spyder/package.py

@@ -13,7 +13,6 @@ class PySpyder(PythonPackage):
     url      = "https://pypi.io/packages/source/s/spyder/spyder-3.1.3.tar.gz"
 
     version('3.1.3', sha256='4978872cc5a006803bc8742d0a8fb43c49aef9524f0a9fcb8bd6dfcfdc2d2d6a')
-    version('2.3.9', md5='dd01e07a77123c128ff79ba57b97c1d7')
 
     depends_on('python@2.7.0:2.8.0,3.3.0:', type=('build', 'run'))
     depends_on('py-rope@0.9.4:',      type=('build', 'run'), when='^python@:3')

var/spack/repos/builtin/packages/py-traitlets/package.py

@@ -21,7 +21,6 @@ class PyTraitlets(PythonPackage):
     version('4.2.0', sha256='923cbe84bef30c27d2083f014f23a5da0ebe7da2e67a683d97acb07002e2ce0d')
     version('4.1.0', sha256='93ead8dbf7e9617c88b79620072bfc499e7f25613f3df2234e5fdf08348c0a83')
     version('4.0.0', sha256='03f380cb2e47689ae55dbe9a5dccbdde5cad8c4637312d720f4c3a991fb15cd2')
-    version('4.0',   md5='14544e25ccf8e920ed1cbf833852481f')
 
     depends_on('python@2.7:2.8,3.3:', type=('build', 'run'))
     depends_on('py-six', type=('build', 'run'))

var/spack/repos/builtin/packages/qt-creator/package.py

@@ -15,9 +15,6 @@ class QtCreator(QMakePackage):
     list_depth = 2
 
     version('4.8.0', sha256='4c4813454637141a45aa8f18be5733e4ba993335d95940aadf12fda66cf6f849')
-    version('4.4.0', md5='bae2e08bb5087aba65d41eb3f9328d9a')
-    version('4.3.1', md5='6769ea47f287e2d9e30ff92acb899eef')
-    version('4.1.0', md5='657727e4209befa4bf5889dff62d9e0a')
 
     depends_on('qt@5.6.0:+opengl')
     # Qt Creator comes bundled with its own copy of sqlite. Qt has a build

var/spack/repos/builtin/packages/r-checkpoint/package.py

@@ -18,7 +18,6 @@ class RCheckpoint(RPackage):
 
     version('0.4.6', sha256='fd1a5edb5cb1a40d7ed26bb196de566110fe2ef62e70b4e947c003576a03ebb2')
     version('0.4.3', sha256='c3e862f89f8838183d6028f7ed13683aec562e6dab77ad4b6a5e24ec653cfb64')
-    version('0.3.18', md5='021d7faeb72c36167951e103b2b065ea')
     version('0.3.15', sha256='09f1feeb2b5b8b409a2e16a9185827b8da5e555f1aa84442a287f15e452beed7')
 
     depends_on('r@3.0.0:', type=('build', 'run'))

var/spack/repos/builtin/packages/r-hmisc/package.py

@@ -20,7 +20,6 @@ class RHmisc(RPackage):
 
     version('4.2-0', sha256='9e9614673288dd00295f250fa0bf96fc9e9fed692c69bf97691081c1a01411d9')
     version('4.1-1', sha256='991db21cdf73ffbf5b0239a4876b2e76fd243ea33528afd88dc968792f281498')
-    version('4.0-3', md5='7091924db1e473419d8116c3335f82da')
 
     depends_on('r-lattice', type=('build', 'run'))
     depends_on('r-survival@2.40-1:', type=('build', 'run'))

var/spack/repos/builtin/packages/r-knitr/package.py

@@ -19,7 +19,6 @@ class RKnitr(RPackage):
     version('1.23', sha256='063bfb3300fc9f3e7d223c346e19b93beced0e6784470b9bef2524868a206a99')
     version('1.17', sha256='9484a2b2c7b0c2aae24ab7f4eec6db48affbceb0e42bd3d69e34d953fe92f401')
     version('1.14', sha256='ba6d301482d020a911390d5eff181e1771f0e02ac3f3d9853a9724b1ec041aec')
-    version('0.6',  md5='c67d6db84cd55594a9e870c90651a3db')
 
     depends_on('r@2.14.1:', when='@:1.9', type=('build', 'run'))
     depends_on('r@3.0.2:', when='@1.10:1.14', type=('build', 'run'))

var/spack/repos/builtin/packages/r-mass/package.py

@@ -17,6 +17,5 @@ class RMass(RPackage):
     version('7.3-51.4', sha256='9911d546a8d29dc906b46cb53ef8aad76d23566f4fc3b52778a1201f8a9b2c74')
     version('7.3-51.3', sha256='5b0e0e7704d43a94b08dcc4b3fe600b9723d1b3e446dd393e82d39ddf66608b6')
     version('7.3-47',   sha256='ed44cdabe84fff3553122267ade61d5cc68071c435f7645d36c8f2e4e9f9c6bf')
-    version('7.3-45', md5='aba3d12fab30f1793bee168a1efea88b')
 
     depends_on('r@3.1.0:', type=('build', 'run'))

var/spack/repos/builtin/packages/r-matrix/package.py

@@ -16,7 +16,6 @@ class RMatrix(RPackage):
 
     version('1.2-17', sha256='db43e6f0196fd5dfd05a7e88cac193877352c60d771d4ec8772763e645723fcc')
     version('1.2-14', sha256='49a6403547b66675cb44c1afb04bb87130c054510cb2b94971435a826ab41396')
-    version('1.2-12', md5='0ade6e374716f08650cc8b8da99a313c')
     version('1.2-11', sha256='ba8cd6565612552fe397e909721817b6cc0604a91299d56d118208006888dc0b')
     version('1.2-8',  sha256='3cd2a187c45fc18a0766dc148b7f83dbf6f2163c256e887c41cbaa7c9a20dbb7')
     version('1.2-6',  sha256='4b49b639b7bf612fa3d1c1b1c68125ec7859c8cdadae0c13f499f24099fd5f20')

var/spack/repos/builtin/packages/r-nlme/package.py

@@ -17,7 +17,6 @@ class RNlme(RPackage):
     version('3.1-139', sha256='0460fc69d85122177e7ef01bad665d56bcaf63d31bdbfdbdfdcba2c082085739')
     version('3.1-131', sha256='79daa167eb9bc7d8dba506da4b24b5250665b051d4e0a51dfccbb0087fdb564c')
     version('3.1-130', sha256='ec576bd906ef2e1c79b6a4382743d425846f63be2a43de1cce6aa397b40e290e')
-    version('3.1-128', md5='3d75ae7380bf123761b95a073eb55008')
 
     depends_on('r@3.0.2:', when='@:3.1-131', type=('build', 'run'))
     depends_on('r@3.3.0:', when='@3.1-131.1', type=('build', 'run'))

var/spack/repos/builtin/packages/r-nmf/package.py

@@ -19,7 +19,6 @@ class RNmf(RPackage):
     list_url = "https://cloud.r-project.org/src/contrib/Archive/NMF"
 
     version('0.21.0', sha256='3b30c81c66066fab4a63c5611a0313418b840d8b63414db31ef0e932872d02e3')
-    version('0.20.6', md5='81df07b3bf710a611db5af24730ff3d0')
 
     depends_on('r@3.0.0:', type=('build', 'run'))
     depends_on('r-pkgmaker@0.20:', type=('build', 'run'))

var/spack/repos/builtin/packages/r-pkgmaker/package.py

@@ -20,7 +20,6 @@ class RPkgmaker(RPackage):
     list_url = "https://cloud.r-project.org/src/contrib/Archive/pkgmaker"
 
     version('0.27', sha256='17a289d8f596ba5637b07077b3bff22411a2c2263c0b7de59fe848666555ec6a')
-    version('0.22', md5='73a0c6d3e84c6dadf3de7582ef7e88a4')
 
     depends_on('r@3.0.0:', type=('build', 'run'))
     depends_on('r-registry', type=('build', 'run'))

var/spack/repos/builtin/packages/r-randomfieldsutils/package.py

@@ -18,6 +18,5 @@ class RRandomfieldsutils(RPackage):
 
     version('0.5.3', sha256='ea823cba2e254a9f534efb4b772c0aeef2039ee9ef99744e077b969a87f8031d')
     version('0.5.1', sha256='a95aab4e2025c4247503ff513570a65aa3c8e63cb7ce2979c9317a2798dfaca2')
-    version('0.3.25', md5='026c15a23296c9726012135891f016d5')
 
     depends_on('r@3.0:', type=('build', 'run'))

var/spack/repos/builtin/packages/r-rngtools/package.py

@@ -20,7 +20,6 @@ class RRngtools(RPackage):
     version('1.4', sha256='3aa92366e5d0500537964302f5754a750aff6b169a27611725e7d84552913bce')
     version('1.3.1.1', sha256='99e1a8fde6b81128d0946746c1ef84ec5b6c2973ad843a080098baf73aa3364c')
     version('1.3.1', sha256='763fc493cb821a4d3e514c0dc876d602a692c528e1d67f295dde70c77009e224')
-    version('1.2.4', md5='715967f8b3af2848a76593a7c718c1cd')
 
     depends_on('r@3.0.0:', when='@:1.3.1', type=('build', 'run'))
     depends_on('r@3.6.0:', when='@1.3.1.1', type=('build', 'run'))

var/spack/repos/builtin/packages/r-xlsx/package.py

@@ -15,7 +15,6 @@ class RXlsx(RPackage):
     listurl  = "https://cloud.r-project.org/src/contrib/Archive/xlsx"
 
     version('0.6.1', sha256='a580bd16b5477c1c185bf681c12c1ffff4088089f97b6a37997913d93ec5a8b4')
-    version('0.5.7', md5='36b1b16f29c54b6089b1dae923180dd5')
 
     depends_on('r-rjava', type=('build', 'run'))
     depends_on('r-xlsxjars', type=('build', 'run'))

var/spack/repos/builtin/packages/re2c/package.py

@@ -14,7 +14,6 @@ class Re2c(AutotoolsPackage):
     url      = "https://github.com/skvadrik/re2c/releases/download/1.2.1/re2c-1.2.1.tar.xz"
 
     version('1.2.1', sha256='1a4cd706b5b966aeffd78e3cf8b24239470ded30551e813610f9cd1a4e01b817')
-    version('1.0.3', md5='8f575e2bf2efd3c685c87042f279ae4f')
 
     def configure_args(self):
         args = ['--disable-dependency-tracking']

var/spack/repos/builtin/packages/revbayes/package.py

@@ -15,8 +15,6 @@ class Revbayes(CMakePackage):
 
     version('1.0.11', sha256='7e81b1952e3a63cb84617fa632f4ccdf246b4d79e7d537a423540de047dadf50')
     version('1.0.10', sha256='95e9affe8ca8d62880cf46778b6ec9dd8726e62a185670ebcbadf2eb2bb79f93')
-    version('1.0.4', md5='5d6de96bcb3b2686b270856de3555a58',
-            url='https://github.com/revbayes/revbayes/archive/v1.0.4-release.tar.gz')
 
     variant('mpi', default=True, description='Enable MPI parallel support')
 

var/spack/repos/builtin/packages/rose/package.py

@@ -18,27 +18,16 @@ class Rose(AutotoolsPackage):
     homepage = "http://rosecompiler.org/"
     # url = "https://github.com/rose-compiler/rose-develop/archive/v0.9.7.0.tar.gz"
     url = "https://github.com/rose-compiler/rose-develop/archive/v0.9.9.104.zip"
+    git = "https://github.com/rose-compiler/rose-develop.git"
 
     # --------------------------------------------------------------------------
     # ROSE Versions
     # --------------------------------------------------------------------------
-    version(
+    version("0.9.10.0", sha256="7b53b6913fd6ca0c5050b630dae380f3e6b0897cde6148172ba01095f71cbaca")
-        "0.9.10.0",
+
-        sha256="7b53b6913fd6ca0c5050b630dae380f3e6b0897cde6148172ba01095f71cbaca",
+    # git versions
-    )
+    version("0.9.9.52", commit="bd4fc0cc332ce62d9fa54db19879507d9e4f239b")
-    version("0.9.9.104", md5="b01cf9d2fd440fc0fe77a713c5f7831e")
+    version("develop", branch="master")
-    version("0.9.9.0", md5="8f47fb8aa803d019657bd42c8b892cce")
-    version("0.9.7.0", md5="be0d0941ba4c0349a20d6394c20d16d7")
-    version(
-        "0.9.9.52",
-        commit="bd4fc0cc332ce62d9fa54db19879507d9e4f239b",
-        git="https://github.com/rose-compiler/rose-develop.git",
-    )
-    version(
-        "develop",
-        branch="master",
-        git="https://github.com/rose-compiler/rose-develop.git",
-    )
 
     # --------------------------------------------------------------------------
     # Dependencies

var/spack/repos/builtin/packages/rtags/package.py

@@ -13,7 +13,6 @@ class Rtags(CMakePackage):
     url      = "https://andersbakken.github.io/rtags-releases/rtags-2.17.tar.gz"
 
     version('2.17', sha256='cde8882aceb09d65690007e214cc1979e0105842beb7747d49f79e33ed37d383')
-    # version('2.12', md5='84988aaff27915a79d4b4b57299f9a51')  # no available
 
     depends_on("llvm@3.3: +clang")
     depends_on("zlib")

var/spack/repos/builtin/packages/scr/package.py

@@ -17,11 +17,6 @@ class Scr(CMakePackage):
     url      = "https://github.com/LLNL/scr/archive/v1.2.0.tar.gz"
     git      = "https://github.com/llnl/scr.git"
 
-    # NOTE: scr-v1.1.8 is built with autotools and is not properly build here.
-    # scr-v1.1.8 will be deprecated with the upcoming release of v1.2.0
-    # url      = "https://github.com/LLNL/scr/releases/download/v1.1.8/scr-1.1.8.tar.gz"
-    # version('1.1.8', md5='6a0f11ad18e27fcfc00a271ff587b06e')
-
     version('master', branch='master')
     version('1.2.2', sha256='764a85638a9e8762667ec1f39fa5f7da7496fca78de379a22198607b3e027847')
     version('1.2.1', sha256='23acab2dc7203e9514455a5168f2fd57bc590affb7a1876912b58201513628fe')

var/spack/repos/builtin/packages/simulationio/package.py

@@ -16,8 +16,6 @@ class Simulationio(CMakePackage):
 
     version('develop', branch='master')
     version('9.0.1', sha256='c2f6c99417165f6eb8cbb9c44822d119586675abb34eabd553eb80f44b53e0c8')
-    version('1.0.0', md5='5cbf1d0084eb436d861ffcdd297eaa08')
-    version('0.1.0', md5='00f7dabc08ed1ab77858785ce0809f50')
 
     variant('julia', default=False)
     variant('python', default=True)

var/spack/repos/builtin/packages/thrift/package.py

@@ -22,7 +22,6 @@ class Thrift(Package):
     version('0.11.0', sha256='c4ad38b6cb4a3498310d405a91fef37b9a8e79a50cd0968148ee2524d2fa60c2')
     version('0.10.0', sha256='2289d02de6e8db04cbbabb921aeb62bfe3098c4c83f36eec6c31194301efa10b')
     version('0.9.3', sha256='b0740a070ac09adde04d43e852ce4c320564a292f26521c46b78e0641564969e')
-    version('0.9.2', md5='89f63cc4d0100912f4a1f8a9dee63678')
 
     # Currently only support for c-family and python
     variant('c', default=True,

var/spack/repos/builtin/packages/turbine/package.py

@@ -19,7 +19,6 @@ class Turbine(AutotoolsPackage):
 
     version('master', branch='master')
     version('1.2.3', sha256='a3156c7e0b39e166da3de8892f55fa5d535b0c99c87a9add067c801098fe51ba')
-    version('1.2.1', md5='c8976b22849aafe02a8fb4259dfed434')
     version('1.1.0', sha256='98fad47597935a04d15072e42bf85411d55ef00cb6f953e9f14d6de902e33209')
 
     variant('python', default=False,

var/spack/repos/builtin/packages/vardictjava/package.py

@@ -15,7 +15,6 @@ class Vardictjava(Package):
     url      = "https://github.com/AstraZeneca-NGS/VarDictJava/releases/download/v1.5.1/VarDict-1.5.1.tar"
 
     version('1.5.1', sha256='f1d710d238e8ab41b02a99fa8698baeee8c8668635a847b826913dd03a9176b9')
-    version('1.4.4', md5='6b2d7e1e5502b875760fc9938a0fe5e0')
 
     depends_on('java@8:', type='run')
 

var/spack/repos/builtin/packages/vcftools/package.py

@@ -17,7 +17,7 @@ class Vcftools(AutotoolsPackage):
     url      = "https://github.com/vcftools/vcftools/releases/download/v0.1.14/vcftools-0.1.14.tar.gz"
 
     # this is "a pre-release"
-    # version('0.1.15', md5='61045197848dea20a0158d2faf02e5be')
+    # version('0.1.15', sha256='31e47afd5be679d89ece811a227525925b6907cce4af2c86f10f465e080383e3')
     version('0.1.14', sha256='76d799dd9afcb12f1ed42a07bc2886cd1a989858a4d047f24d91dcf40f608582')
 
     depends_on('perl', type=('build', 'run'))

var/spack/repos/builtin/packages/wcslib/package.py

@@ -14,7 +14,6 @@ class Wcslib(AutotoolsPackage):
     url      = "ftp://ftp.atnf.csiro.au/pub/software/wcslib/wcslib-6.4.tar.bz2"
 
     version('6.4', sha256='13c11ff70a7725563ec5fa52707a9965fce186a1766db193d08c9766ea107000')
-    version('5.18', md5='67a78354be74eca4f17d3e0853d5685f')
 
     variant('cfitsio', default=False, description='Include CFITSIO support')
     variant('x',       default=False, description='Use the X Window System')

var/spack/repos/builtin/packages/xsdktrilinos/package.py

@@ -19,14 +19,11 @@ class Xsdktrilinos(CMakePackage):
     version('develop', tag='master')
     version('xsdk-0.2.0', tag='xsdk-0.2.0')
     version('12.8.1', sha256='f545c0821743f23af3b48f242c66bbc4593e3804436336db4eb3bb08622ad794')
-    version('12.6.4', md5='44c4c54ccbac73bb8939f68797b9454a')
+    version('12.6.4', sha256='a7664afeab37ccfcbb5aae0bb03cb73ca8e511e0fecc365b9ccd32ba208318e3')
 
-    variant('hypre',        default=True,
+    variant('hypre',  default=True, description='Compile with Hypre preconditioner')
-            description='Compile with Hypre preconditioner')
+    variant('petsc',  default=True, description='Compile with PETSc solvers')
-    variant('petsc',        default=True,
+    variant('shared', default=True, description='Enables the build of shared libraries')
-            description='Compile with PETSc solvers')
-    variant('shared',       default=True,
-            description='Enables the build of shared libraries')
 
     # MPI related dependencies
     depends_on('mpi')