merged

some support for session-qualified theories: allow to refer to resources via qualified name instead of odd file-system path;

support for long names in Scala;

tuned;

Discontinued old spark_open; spark_open_siv is now spark_open

suppress slightly odd completions of "real";

tuned proofs;

tuned proofs;

clarified exit sequence: prover is reset afterwards, no more output messages;

more synchronized treatment of prover process, which might emit more messages before shutdown and requires manager to accept them;

tuned;

some sanity checks for Isabelle sources;

prefer plain ASCII / latex over not-so-universal Unicode;

tuned whitespace;

proper Unix line termination;

require explicit 'document_files';

updated mkroot;

basic support for Mercurial command line tools;

clarified;

ignore malformed file names outright, e.g. .class files with dollar;

more systematic Isabelle output, like in classic Isabelle/ML (without markup);

systematic replacement of 'files' by 'document_files';

tuned signature -- accomodate operations of ROOT files;

tuned -- prefer Isabelle/Scala operations;

tuned proofs;

tuned;

tuned proofs;

improved syslog performance -- avoid denial-of-service e.g. with threads_trace = 5 and active Syslog dockable;

tuned -- fewer aliases of critical operations;

removed dead code; tuned comments;