<commit_before>##depends:none

# GATK, MIT
  curl -s http://$NIC_MIRROR/pub/sci/molbio/chipster/dist/tools_extras/GenomeAnalysisTKLite-latest.tar.bz2 | tar -xj -C ${TOOLS_PATH}/
  ln -s GenomeAnalysisTKLite-2.1-11-gfb37f33 ${TOOLS_PATH}/GenomeAnalysisTK2
<commit_msg>GATK 3.8 & 4.beta.3<commit_after>##depends:none

# GATK, MIT
#  curl -s http://$NIC_MIRROR/pub/sci/molbio/chipster/dist/tools_extras/GenomeAnalysisTKLite-latest.tar.bz2 | tar -xj -C ${TOOLS_PATH}/
#  ln -s GenomeAnalysisTKLite-2.1-11-gfb37f33 ${TOOLS_PATH}/GenomeAnalysisTK2

# GATK 3.8
cd ${TMPDIR_PATH}/
wget https://software.broadinstitute.org/gatk/download/auth?package=GATK -O GenomeAnalysisTK-.tar
tar xf GenomeAnalysisTK-.tar -C ${TOOLS_PATH}/
cd ${TOOLS_PATH}
ln -s GenomeAnalysisTK-3.8-0-ge9d806836 GATK

# GATK4
cd ${TMPDIR_PATH}/
wget https://software.broadinstitute.org/gatk/download/auth?package=BETA -O gatk-4.beta.3.zip
unzip gatk-4.beta.3.zip -d ${TOOLS_PATH}
cd ${TOOLS_PATH}
ln -s gatk-4.beta.3-SNAPSHOT GATK4
  
{'fraction_non_alphanumeric': 0.15446339017051153, 'fraction_numerical': 0.044132397191574725, 'mean_word_length': 4.575418994413408, 'pattern_counts': {'":': 0, '<': 3, '<?xml version=': 0, '>': 3, 'https://': 2, 'lorem ipsum': 0, 'www.': 0, 'xml': 0}, 'pii_count': 0, 'substrings_counts': 0, 'word_list_counts': {'cursed_substrings.json': 2, 'profanity_word_list.json': 0, 'sexual_word_list.json': 0, 'zh_pornsignals.json': 0}}
{'dir': 'git-commits-cleaned', 'id': '820523', 'n_tokens_mistral': 487, 'n_tokens_neox': 447, 'n_words': 66}