corrected file permissions

.classpath

.gitignore

.idea/compiler.xml

.idea/encodings.xml

.idea/misc.xml

.idea/vcs.xml

.idea/workspace.xml

.project

.settings/org.eclipse.core.resources.prefs

.settings/org.eclipse.jdt.apt.core.prefs

.settings/org.eclipse.jdt.core.prefs

.settings/org.eclipse.m2e.core.prefs

README.md

docs/aterm-download.md

docs/aterm-import.md

docs/aterm.md

docs/cryo-em/cryoem-download-aterm-script-url-create.md

docs/cryo-em/cryoem-download-shell-script-url-create.md

docs/scp-get.md

docs/scp-put.md