Replication pack

list.txt

AddstarMC/Minigames 0b4e9d40f5bc88b5930ac0094d7f403bde3fc55a
Adobe-Consulting-Services/acs-aem-tools c588590b149a409950b6d250db6b3583331f1688
afrunt/jach 18519dd0bd9e65772393eb186c02f1bf4713e58c
aintshy/hub 4cacc3857e095cf1b369eb65cd1dcc71649be640
airlift/slice 8a2c786718d8d7936a25feaa1a152438f7c78ba5
alex-bretet/cloudstreetmarket.com 76de2e0d31e6f8f57db87a2964b9c7aa6f2acdfe
alexvictoor/web-logback 51c01491821d5780c595ff4329ebeabbb5008c6c
akraxx/gitlab-jira-integration 7cdaa7053af0cd6a1677d725697256504ac6f46f
3wks/thundr 13ee04f4ebf0634dfbb5141bd5635b3a9587bc4a
alibaba/canal 44722fe01c5568239e190775c5c9dc7360335db1
alibaba/jvm-sandbox 35eae8ec5847c15b03c41cfd635a0e99707fa8ba
abel533/Mapper ce72d3f46f4178a6c5855d62b84a623860958769
alimate/errors-spring-boot-starter 5ea7254758052ebcbdba8b3d23ad171f1f2b7222
aliyun/aliyun-log-logback-appender 5f02515675ec03387e2605d20673ef22ffce46cf
alibaba/druid 4b2df57add23a8169e301b75aefc50c164e55107
americanexpress/nodes 9bc0d442e67248d0899429ae8548340c055ee50f
AichaelLee/zeusSpring 251777bef6ed018010fe3981ff270d15b8741862
aerogear/aerogear-simplepush-server 91c982e8ee65c6c6b2d389dffa8c28d5aed27e73
apache/airavata e66939d09586e3f5f5fc25a4011541f8359f1b98
apache/commons-crypto 782ca06a1f9a292756fbad9eb9841e685cd34af1
apache/commons-jexl 5e056a10697a1461f0f30c63d17319d53ba9a6c2
apache/commons-email 5516c487a5d03df520480d47f5c5ae5a3b3341d4
apache/commons-validator be64059580f5ef8e22dd0fc795f81915dc406ff7
apache/dubbo-spring-boot-project e21ceff509337d8434abcdfe315b553d7b33afe5
apache/incubator-datasketches-memory d94fcef4a885b5086f69710443c55c1e07c3bd15
apache/incubator-tamaya b3c2820e9878dc3df683e3f0079f2be4829b410a
apache/commons-configuration 6b2f23d223face310345747e5cb6a5cd787b53c9
apache/rocketmq-spring cc1a340d980703a1c810b99fd361b8fb70cbc97d
apereo/java-cas-client 9279ab8d5467ac98f7f79cef5ff818ac11df74dc
armenak/DataDefender 934870093842aedd16343d3ff6bb61219cca628c
ashwanthkumar/slack-java-webhook d9189e8e87a9f55eb5616c2f53d5d72090bc7978
ashwanthkumar/gocd-slack-build-notifier aa6bd18da6b8f347179cbed20e5137d51a93d2f1
astrapi69/jgeohash 81aea9b638da663f690fcc8350dffafb615d4da8
artsok/rerunner-jupiter b789c872b3bd41fc0d11535567b8287cfe6cb47f
Athou/commafeed c7ba5ca8942d50e273353792eed51759255fa3e9
astefanutti/metrics-cdi 1d146091b84e74159afd97f0b598fe71fd6b76a3
apache/opennlp cfa7bb6ad751ed18078a61d036e0658961f05ea6
arteam/simple-json-rpc 06418e9fb4d3e3a2728a31fdb9fc61bad057980f
atteo/xml-combiner 265b9976e9d01fcd1b774c9922a5fe1770b79a73
augustd/burp-suite-error-message-checks 42a4dc5aa7779af766759927ee7aa7cd820fa833
AuthorizeNet/sdk-java 94492cfb9baf63d0ecd33906c4a9ed541e633bbe
Atmosphere/atmosphere 7631b2b401aed7efb4e3e766cdcd14c13f250c0e
Backelite/sonar-swift 42831ead6a8e838fe5db28b0430c77209b72603f
bekkopen/NoCommons 5a576696390cecaac111fa97fde581e0c1afb9b8
beijunyi/ParallelGit 8c09df9b67e8a309dc7ce640ff22abcbc8c75366
blinkfox/zealot 21b00fa3e4ed42188eef3116d494e112e7a4194c
blueshen/ik-analyzer b2adf0c5a6e650b4bd2314bff93049cfacd8e05d
BotMill/fb-botmill d94da3615a7339822c137ef75c92a03d791ee969
britter/spring-boot-heroku-demo 5e3a678ab1ee4a6e5bd67aef107842f0aae46f79
cardillo/joinery 026a7f991d43a84ce2dc406cfa505e36d66fe93f
Blackdread/canon-sdk-java 3152c015b68a9f539a5c06616837dcf112785efa
casbin/jcasbin 2090f14152927a9948096a6526d56a75be5a55c5
castorini/anserini b752d908e8d3aa54ed15d192cecead3c5a77d96c
CESNET/perun 9f5115be503bf1bb26f0fd1b0a50ce31ce799b3c
cloudevents/sdk-java 8c635e3c535e87981944ba699028056fcb9e171b
burtcorp/jmespath-java 5fa7ecadefa6dc720cd96bfe50da7cb4fb6d26fa
cassiomolin/jersey-jwt e0081152298ea18cb4d17ad53c3a0d89accbda8e
clouway/oauth2-server cf7e0e2b4bc4289d4a007ef9f47216a8b05b3999
charite/jannovar 617064d07e5c6afea1998f0487a2077bdbcbf466
centic9/jgit-cookbook 451ae104a34c3281eaa42a7b9c3cfedc20e465db
chucknorris-io/chuck-api 40f6b9fb1ef42457eccf951437f26a3727fa21cf
ContainX/marathon-ldap ce469b5d9f748c71a83dc1c18c0f4261eafae0ff
constretto/constretto-core dbfd21097dfe1d07c2ea1b612e9f2550d582cc79
crossoverJie/JCSprout 9499cda4d05a82996d9c82d56c0a5644f6257785
crowdcode-de/KissMDA 33b510680cd6edf407439188b74cd363eecc0d2a
coveooss/saml-client 210558f0c9be8e250711ae3efa0f0ec2dcf1bf89
CUTR-at-USF/gtfs-realtime-validator 7c740c3f02620a48dd837164f8a8b5f0272a5075
DaanVanYperen/artemis-odb-contrib 19c06f07aed3536a672565d078f82308eb937b23
CryptoKass/dilithium 7f740ef4490cf6ad7a194d24c2fdbbfb3d398e7f
Cognifide/Slice 382453cdaee33417a7cdf2a0eaee13ea6b2091fa
danielnorberg/auto-matter c968ff2403f44a07647613991234a3f9a33e6b26
DataDog/java-dogstatsd-client 35d5e40631b83c59f50a58772a6d1e6350d73e6e
codelion/gramtest 74c14fbae6538c9a1d49cc9edaa87908fbe62127
codedrinker/community ce5a043b5755f833d720a564475659269ecb0cc5
dcendents/mybatis-generator-plugins b1883501fbb3ae5764f1044dbf2c2d61a3f964ea
clusterfk/chaos-proxy f935b600f5014e4366e24a263e8a810b66bdb3bf
decorators-squad/eo-yaml 8155afa175f9ace3aa36e359b59e3846735d4307
dcm4che/dcm4che 13c2fc0bbb405fabe261bea6c1137b418a10c36e
delirius325/jmeter-elasticsearch-backend-listener f62058c8af7d2ce52f73804af79b03e0d01ec5d8
deric/gitlab-ci-mesos 3b78739ba5ac45263b6fa4ac0221711f9b9876f2
Devskiller/friendly-id bc4273466253a61c2cd4e3ecb413df886f8995f8
dhfbk/tint f5936830240b88b6c709909a68c203be4c44ef06
dianbaer/grain 02f61fe6c9f9354bc4c732d32ad78b57df0c3731
dice-group/FOX f6b38f49d1f5b206f62bab569be91755cd05d919
cloudyrock/mongock 3bf9d1378c68909aac0c48682f46327a9a60475d
dka23/gitlab-github-proxy 31b384edae5a6fcf1226c6a218c8ab6a8cd37975
DiffKit/DiffKit 6dec3ba80acd72daee45adbf2da189cd89d6b9de
Doccrazy/keycloak-protocol-cas a83dc4ee1705986ae65d7df661e9314acb40d398
dogecoin/libdohj 889ff26ebf3fded76bd0b3b712677c44d36f7405
dmak/jaxb-xew-plugin c8d002648d6eca5aef6b578f9ba11eacc3b14f1c
davidmoten/hilbert-curve 318895edaed242c6535de11409106ba23fc6f845
drallieiv/KinanCity 033c239792693afab2ec28b2a2d72c4686710b5b
domclick/spring-flow-statemachine 2f5975187341c750eb449d08a0f64b27bf01ba43
dropwizard/dropwizard-flyway a8bca167f838d2c8205a99cd57c10bbd3a218638
eBay/cors-filter f782f4cd0a67a3c814a92b0907674fd93aa96dbe
eBay/jsonex 0e3c2bef68dee16ab129292162eaa98f8f729069
e-biz/spring-dbunit 1ec51222ecdd5dbd6daa4bd6879c6eabe76dfb6b
eclipse-jetty/eclipse-jetty-plugin 5cba7335e913a612eb59c4e5e02005ac23ae9d71
ef-labs/stash-hook-mirror f1e3a44f7fdb8882345c02bdbd3b97423eeb049e
Esri/geometry-api-java 7812fd39290efdb19202b19f1d2f8924e2c9ecb7
dropwizard/metrics c96575727b11602391c000f556b6f5d0fadae9fe
etsy/arbiter 166f99f5818274cb688cf85c7687e8ae6be4e803
eugenp/tutorials 3897ea7bc4f9f63f60da2a78e42e5843b9c7c723
everwatchsolutions/convergent-ui 37dbad60f7ed01aac2705a1cf4e42f36151647f8
ExampleDriven/spring-cloud-eureka-example ca603d3c3b3cbabcc8b099ccd55ef1fad164bddb
excelsior-oss/restler 58efcff137868778718fba1113baff59f1c44139
ESAPI/esapi-java-legacy b76f726ecfb001793e7bff3724a7cd8c93f633ed
Fadezed/concurrency a2bf8a48c16961fd8dc587386ca06440a3fe85e6
FasterXML/aalto-xml acb682f8d16050d1b88543baebf306e59fec2521
FasterXML/jackson-modules-java8 178b81d57d7e458a10c99fc63cc84d8e07d22392
FasterXML/jackson-jaxrs-providers c1c7f875bbebed2d90d4b5d80369c21ab2c68f67
ff4j/ff4j 183913158b59f6e6b4ce0349e4a23a814760cc35
fivesmallq/web-data-extractor f8fdd82fff395eba50df37ece8a75095249270ea
fommil/matrix-toolkits-java 6157618bc86bcda3749af2a60bf869d8f3292960
forcedotcom/ApexUnit c87ac36bc1708dd66ad0aca3296e7162ed21bc5e
fizzed/stork c35185c20d05de26aa49eece17cecfb79b337b54
framiere/a-kafka-story 1e9bd9344d370dee13b17747a8eb415d163b8496
fridujo/rabbitmq-mock b0f13df714fc84454edfca9be96e9b0991163b87
forgemo/bittrex-java-client 1615aab8ac8d5905e8d6ad6989d57c6a08376e8c
gabrie-allaigre/sonar-gitlab-plugin 1a6b20737c0e034fed35f555442fa493c6268e9f
Fundynamic/dune2themaker4j 8efc1618805e9eb0f8ec3e3cda668052ab3e56df
geckoboard-java-api/highchart-java-api 66776cbd3c85380bb3dd21a942e0c5a2be6135a7
geftimov/hadoop-map-reduce-patterns 5cfa05084ea1058d5d837c033ac653bf2e6ad1a9
garethjevans/swagger-codegen-maven-plugin 87cdeae56e95b67cc44d1e9658be8d1a35fd4807
ganshane/shakey f6938bdef210cc44d661fb0f200e37f279e7ba23
ghillert/spring-batch-integration-sample 5ab460e9b41e21ff0cde7e84ee70c5e06cc14095
gitbucket/markedj 5591594d17fec4365d7b008934d907e4052489ce
gini/dropwizard-gelf 52ce57c2b98f58889d91a7f34f09f97a0f5f66a9
gmr/rabbitmq-flume-plugin a53a094914251b263f54a565877eb6e366079b12
godaddy/godaddy-logger d5819e00799e95a6a98aeddf690b4b4afd89f277
google/gson f649e051411e092f0123878e16c5132500a2d01e
google/acai 4fa48f263992dc881b3dabc866158d581f28473f
google/graphicsfuzz 143f46a1298a2a1e012b8b3ab31fc87c2075e82f
ftomassetti/turin-programming-language ae4aa23f92727a28479c99c3fd79b6c6d73fdd20
greengerong/prerender-java f7fc7a5e9adea8cf556c653a87bbac2cfcac3d06
greenjoe/lambdaFromString 67d383f3922ab066e908b852a531880772bbdf29
grpc-swagger/grpc-swagger acff945119b0658ea288a5930b9edeea8acafaeb
geneontology/obographs cfcfd5f4c0ec76809106c5ccbc36d30b6196eba7
hcoles/highwheel e4257ebb9cad5bc799246c331cd8849c1bbbf717
heroku/heroku-maven-plugin 4678a80fcfdb233e78d5361e815fa51477039477
hoijui/JavaOSC f4f71e1af012bad6103298755208e570d947dd9f
HolmesNL/kafka-spout bef626b9fab6946a7e0d3c85979ec36ae0870233
hcoles/pitest 9f838bdcba10a22f32a0c35d22cb6d7ae44009d2
hermannpencole/nifi-config 062583a54c31d582135ed21bea076dd31037b080
hoverruan/weiboclient4j 80556b1ce40ee4dc063b977f885792efb6307547
httpcache4j/httpcache4j 9c07ebd63cd104a99eb9e771f760f14efa4fe0f6
HubSpot/jinjava 4de4030199365bda87bcfc1098fc7c2850195a51
HubSpot/Rosetta 08cdd66f9b0a7c2db3384e4ed0070919d224bf99
HubSpot/slack-client 25232a17884708c860880b917e8dafaf89fb6ea7
houbb/opencc4j 289c54d7c8a279410bc3631cec0c1f5351f333d7
ihaolin/wechat 57867a063a4fcb54fd3772443a5ab2bc2a09ff9e
iipc/openwayback d919056cb182899a4b7d8dbcc1ec9927505c492f
iMouseWu/limiter b64706334364974881f5070538a51fe97015afd5
IMSGlobal/basiclti-util-java 903343b38dfe15cfcb46ced13d34148cabfaabc1
immutables/immutables 4c4b0b39f671b7ffd8ee46f2278104089ab24d5e
jacoco/jacoco 6babdb5233217b0812a85f6b1673aabe7f0fd47e
itesla/ipst 95d6f096f4ab8c3851528bcad9587e236c9f8d2d
jaredstehler/dropwizard-guice 079fa51141c340da24a3e8babb5b126c06319333
javabeanz/owasp-security-logging 060dcb1ab5f62aaea274597418ce41c8433a6c10
java-diff-utils/java-diff-utils a3663002bb1b467fbb93dd68c36ff8f734cc9a80
JakubDziworski/Enkel-JVM-language 1527076545f7402a279db2c19f1e28ba7f084585
jcabi/jcabi-github eb340c35a77b4709f007256660d95ffa2e918931
jcabi/jcabi-manifests d2945263864b55da1f853ba14a739559c9d09a24
jcbvm/i18n-editor 84c24d518a4b8ac81ccc7f12ba5fff51c8ca4fdf
jcgay/send-notification 1273cce5f840e3aa43e677e4a179c04494f4adf4
j-easy/easy-batch bc1683c621c71ea203e9b9cc62a6e4bae8c2806b
j-easy/easy-flows 41ec8cd47c09091048a58d2d76caaf8e75014b86
j-easy/easy-props ab21b92594a39ba75119c0f3ae4cd8d242475be5
jeevatkm/excelReader 87f451474e3e8863688d19269bcd2bcc56873e87
jFastCGI/jfastcgi 74efd03067a824e8a6c107475c8b5db79cfe2251
jeremiehuchet/nominatim-java-api 214222f96810b4a96457b918d5b0b23731ad9d88
jerlang/jerlang 167dd928a41676d4e1a83189ef549ae4bc6f8b8a
jhalterman/sarge 36414a661f96227206294093f3051293c8013b21
jirutka/validator-collection df45b077edf39ffb53f0f643b42036f234ae6c0a
jirutka/validator-spring 5f89f5e910feaa790f79eed272bb3d386131b048
JCTools/JCTools 19cbaae4501c310ce3afb1a7443187e244888310
jkuhnert/ognl 16bb6a10a10651b82e7fbe75ab8a2fbdc8372366
jMotif/sax-vsm_classic c72e4e5bee4a3b4881519281a073d58ee4efcb3a
jmrozanec/cron-utils 61119e309778f4f00bb02715892b12147f4658b6
jhunters/jprotobuf 4e8522da046a4bbc836a8ae57eece081415cdabc
johnnymongiat/oath 3fea7a43b213761158835ebb36ee0999afaa1c02
jmock-developers/jmock-library 60addb0bf723354bec495c25194607062509efb2
jottley/spring-social-salesforce 8f3bd01331bc382b0f4414de2393a08a96224d87
jfaster/mango 4f078846f1daa2cb92424edcde5964267e390e8f
jdillon/mvnsh 06a25d4240a87c6f6e972db3239d56125ddb95b0
junit-team/junit4 8c9e81daf38efa8b4af9ba5c55fe83765ac434d6
junkdog/artemis-odb 7b0cdefcd1e651b8fc0a378d1d4681a943b657f8
jonashackt/spring-boot-rest-clientcertificate 9a2d08769ba50e3452233372a3c93747e85902a1
jwtk/jjwt b292b891cadb4b73cebb456f665c51bae04e1bf3
jpmml/jpmml-model 56178838c96379b76a28035c79285c09ff32ae57
kawhii/sso 3f163a3c1a8afcd1045642d195551105330faa97
Kaysoro/KaellyBot 88ca52d05ee5fd700e5903b5ae3789362585b3d2
kairosdb/kairosdb-client f5021bfcc70fde0dfe4969ccfa1966ef2caf38c1
kdkanishka/Virustotal-Public-API-V2.0-Client cff6279f718c0dfea1cb1c8011a2049a7347ec03
KittehOrg/KittehIRCClientLib 7eb978a913b2f3e4b506c66a99715301419b58e1
keets2012/Auth-service 5d6d364ca3a783fe118f0ceeb927e78b731eca07
knowm/Sundial 654b7598fd3f3a35669c72e982804208655742b9
knightliao/disconf d413cbce9334fe38a5a24982ce4db3a6ed8e98ea
knowm/dropwizard-sundial cdc2c22161f7a53e4cadc04335e4cdfe2770295f
kakawait/cas-security-spring-boot-starter f42e7829f6f3ff1f64803a09577bca3c6f60e347
kstyrc/embedded-redis b85580339bc16c136ae1b27836127ee3deeb39ac
jonashackt/soap-spring-boot-cxf 3bdb61736af09934d60b2d34c9110096bbbb22f0
lanyonm/playground c0c50b69bfb08cae2d267bd95774be66df2ddb1b
korpling/ANNIS 92cc9d6df4da5ba6146883f53747e373df52e08d
letcheng/ProxyPool 4b5144d917dbc31c7b9a2d78135a52a59da9c313
liaochong/myexcel 5f4b469c391040859dfe30d3d79dce827d8f67df
ligboy/retrofit-converter-fastjson 66ba5dc66d08d418fbaac6bc887c8f1d7a7e6952
lightoze/gwt-i18n-server 96de53288e9bf31721d7b0e2a1d9f7b6ce1a7e83
logstash/log4j-jsonevent-layout 6fe6dcdbda0245d3a2b59f3bfe47f222468f87e4
leangen/graphql-spqr 14b58e0cc872d6049c4b5146ca0dc721c60ad32c
leangen/graphql-spqr-spring-boot-starter 0f5d66d478233d3d8401c1e5e4736ac3ed59d793
lord-of-code/loc-framework 72b9f648d1914cca759096520a7214953d928d47
lmco/streamflow 9adb2a83aa50a991b149d4e9955cb5a7098769af
lukas-krecan/json2xml 1ca16ef4552c1b6027151f9fc0e56b5db679e9cd
logzio/guice-jersey 5268153e9bdd9be6279407ecdbe92b28c6d1d540
lpradel/steam-web-api-java 6299bf2e5db2e016cb9f75f40735470abb810136
magja/magja ba51bf2d1ba07dbacc9081c94985eb6ffb2f08f8
maihaoche/rocketmq-spring-boot-starter 564c26be615e53a805f8ce23e62f939e4c8e22e0
mailjet/mailjet-apiv3-java e9b4a416c6b7af9d298085fe4d60b2e52a508304
markhobson/hamcrest-compose 83ca6a6bdee08340a73cb39c3d7a30ca9d37bce5
martin-lizner/trezor-ssh-agent facdd7aac735cc77c475720dd774e1e7b71f36b2
mast-group/sequence-mining fd1ab464f902d596bad5663900c03166328ed91d
matomo-org/piwik-java-tracker 23df71d27a89e89dc7a539b2eda88c90a206458b
maxmind/MaxMind-DB-Reader-java c6cfbe10d30348d38b5b68d150e7277b2a19f8db
mgodave/barge 819765029fe4eaef4647c5ee740487297e8b7791
making/spring-boot-blank f70b3fee54d2f5b457786f680543da1d297979df
michaelliao/jsonstream 50adcff2e1293e655462eef5fc5f1b59277de514
mauricioaniche/ck 797a3733eedc031787d448582d39e3193314f5a5
michaelliao/warpdb ee1a19359f233eeb383cb302a4341cfcd7fc6693
microservices-demo/orders f8988a3df8694a07e352cc064ce35d5d6ea4a0cc
microsoft/azure-spring-boot 38b5fbd133641bef40aa3afb5be7553030cf09da
microsoft/botbuilder-java 534c3929dc37fce890a671eb463e90597c34db5d
microsoft/spring-data-cosmosdb cb6a76cb239b053d5634df37da44211b4945e809
mikera/enlight 4ad461ca151e67af4607525f86abc133241c57b9
microsoft/spring-data-gremlin d870e0d91b45de3bca36c4b649d66fbcdd544736
miltonio/milton2 3641dc824ba66b423e9b47ff005517b4ac0a4fa8
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pitest-default-execution.sh

mkdir -p /data/uppdatera/scripts/pitest/bin

cd /data/uppdatera/scripts/pitest/bin
wget https://github.com/hcoles/pitest/releases/download/pitest-parent-1.4.10/pitest-1.4.10.jar
wget https://github.com/hcoles/pitest/releases/download/pitest-parent-1.4.10/pitest-command-line-1.4.10.jar
wget https://github.com/hcoles/pitest/releases/download/pitest-parent-1.4.10/pitest-entry-1.4.10.jar

cd ../

git clone https://github.com/jhejderup/uppdatera-pitest gen
cd gen
git checkout 0ea2e252bec1600df65a404cf41eeef28ecefdb0

##mvn install all repos
##mvn mvn dependency:copy-dependencies

find -name "test-classes" | sed 's/target\/test-classes//' > pitest-dataset.txt

cat ../pitest-dataset.txt | parallel 'cd {}; java -jar /data/uppdatera/scripts/pitest/gen/target/prepare-depclasses-pitest.jar /data/uppdatera/scripts/pitest/bin &> pitest-default.log; [[ $? -eq 0 ]] && echo {}' > ../pitest-default-prep.txt

find . -name default.pitest -printf "%h\n" > ../pitest-default-run.txt
perl -MList::Util=shuffle -e 'print shuffle(<STDIN>);' < ../pitest-default-run.txt > ../pitest-default-exec.txt 
rm ../pitest-default-run.txt

time cat ../pitest-default-exec.txt | parallel -j12 'cd {}; bash default.pitest &> pitest-default-exec.log; [[ $? -eq 0 ]] && echo {}' > ../pitest-default-run.txt

## Finding all modules with mutation results
find . -name mutations.csv | sed -E 's/pit-reports\/.*//' > ../pitest-default-mutations.txt
## wc -l 843

## Get all repos
cat pitest-default-mutations.txt | awk -F"/" '{print $2"/"$3}' | sort | uniq > pitest-default-mutations-repos.txt

## From munich, copy these files to athens
scp jhejderup@athens:/data/uppdatera/github/pitest/pitest-default-mutations.txt .
cat ../pitest-default-mutations.txt | parallel '[[ -f {}/functions.txt ]] && echo {}' | sed 's/\.//' | xargs -I {} bash -c 'scp .{}/functions.txt jhejderup@athens:/data/uppdatera/github/repos{}'
## wc -l 507 

## Create a list for easier retrieval
cat ../pitest/pitest-default-mutations.txt | parallel '[ -f {}/functions.txt ] && echo {}' | wc -l > ../pitest/pitest-default-mutations-fns.txt

## For each module with mutations.csv, retrieve functions.txt and create a unique classes.txt per module
cat ../pitest/pitest-default-mutations-fns.txt | parallel 'cat {}/functions.txt | awk -F"\(" '"'"'{print $1}'"'"' | sed '"'"'s,/*[^/]\+/*$,,'"'"' | sort | uniq > {}/classes.txt'
## Another non-sed version" cat functions.txt | awk -F"\(" '{print $1}' | xargs -I {} bash -c 'a="{}";echo ${a%/*}' > classes.txt
## Merge all classes.txt 
cat ../pitest/pitest-default-mutations-fns.txt | parallel 'cat {}/classes.txt' >> ../merged-all-classes.txt 
## Aggregate classes
cat ../merged-all-classes.txt | sort | uniq -c | sort -r -k1 -n > agg-all-classes.txt
## Create a filter (remove log libraries!)
 cat merged-all-classes.txt | grep -E -v "Lorg\/slf4j|Lorg\/apache\/commons\/logging/LogFactory|Lch\/qos|Lorg\/junit|Lorg\/apache\/log4j"| sort | uniq -c | sort -r -k1 -n > agg-all-classes.txt

## Dependency execution
time cat ../pitest/pitest-default-mutations-fns.txt | parallel -j10 'cd {};java -jar /data/uppdatera/scripts/pitest/gen/pitest-dependency/target/dep-gen-pitest.jar /data/uppdatera/scripts/pitest/bin &> pitest-cmd-dep.log; [[ $? -eq 0 ]] && echo {}' > ../pitest-dependency-prep.txt
cat ../pitest/pitest-dep-mutations.txt | perl -MList::Util=shuffle -e 'print shuffle<STDIN>' > ../pitest-dependency-exec.txt
cat ../pitest/pitest-default-mutations-fns.txt | parallel '[[ -f  {}/dependency.pitest ]] && echo {}' > ../pitest/pitest-dep-mutations.txt

time cat ../pitest-dependency-exec.txt | parallel -j10 'cd {}; bash dependency.pitest &> pitest-dep-exec.log; [[ $? -eq 0 ]] && echo {}' > ../pitest/pitest-dep-mutations.txt 

##Find those who produced results
cat ../pitest-dependency-exec.txt | parallel 'cd {}; find pit-reports/dependency -name mutations.csv | egrep -q '"'"'.*'"'"';  [[ $? -eq 0 ]] && echo {}' > ../working.txt
##Find those who dont have any results
 cat ../pitest-dependency-exec.txt | parallel 'cd {}; find pit-reports/dependency -name mutations.csv | egrep -q '"'"'.*'"'"';  [[ $? -eq 0 ]] ||  echo {}' > ../non-working.txt

recreate.sh

cat mvn-agent-success-sha.txt | awk -F" " '{print "git clone https://github.com/"$1".git repos/"$1";cd repos/"$1";git reset --hard "$2}' > reconstruct-data.txt
cat reconstruct-data.txt | parallel